Citrus Sinensis ID: 005191

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------71
Protein Sequence
MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTTRSRRREKDGELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLEEAQ
Secondary Structure (PSIPRED)
cccccccEEEcccccccccccHHHHHHHHHHccccEEEcccccccccccHHHHHHHHHccEEEEEEcccccccHHHHHHHHHHHHcccccccEEEEEEccccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHccccccEEEEEEEcccccHHHHHHHHHHHHHHccccEEEEccccHHHHHHcccHHHHHHHHHHHHHcccccccccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHcccccEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccccHHHHHccccccccHHHHHHHHHHHHcccccHHHHHHHccccccccccHHHHHHHHcccccccHHHHHHHHHHccccccccHHHHcccccEEEEccEEEccHHHHHHHHHHHHHHHcccccccccccccHHHHHHHccccccccEEEEEEcccccccccHHHHHHHHHcccccccEEcccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHcEEccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccEEEEcccccHHHHHHHHHHHHHHHHHccccEEEcccccccccccHHHHHHHHHccEEEEEEEccccccHHHHHHHHHHHHHHHHcccEEEEEEEEccHHHHHHccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHcccccccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHccccEEEEEccccHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHccEEEEccccEEHHHHHHHHHHHHHHHcccccccccEEEccHHHHHHHHHccccccEEEEEEEEccccHHccccHHHHHHHHHHHHHHHHcEEEEccccccccccccccccccccEEEEEcccccccccccccHHcEEEEEEEcHHHHHHcccccccccccccccEEEccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHcc
Coil and Loop (DISEMBL)
masckydvflsfrgedtrDNFLSHLVVALQEKKIKTFIDeeltrgdqiSPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIpifynvdpsvvrnqtgsfkDAFVKHDKQFNKKMPEKVQKWRAVLTEasnlsgwdsnttrpdaKLVKEITADILEKLEKLSAaisdsdgligLESHVEQVRSLLAiglpdvrlvgiwgmggigkTTIAGVVFNqfsqkfegKYFMANVREESEKCGGLVHLRNQVLSKLLgenfdigtpkipQYIRDRLQRMKVFIVLDdvnkygqleyfdggldrfgpgsriivttrDKTILERYgthriyeveglNCNEALRLFCScafkenhcpedllkhsetaahyakgnplALQVLgssfhrkskpdwvntlnnlkrisdsdiygVLKIGYDELSWEEKNLFLDIacffngddrEHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEfrekpekrsrlwdhkdVCHVLeknkedsyspaiffgvgckfgfDHFCQLVGnvcvnsnhvilgfypcwniglsdgatvsfdffiIPYQlvigkgggnktnDFRAAAADVIQVRVAATVFkfehgdcttrsrrrekdgELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLklwgpfhfhAKFHKELLAIVFDWCKERYadfavkcpvleeaq
Flexible Loop (DISEMBL)
masckydvflsfrgedtrdNFLSHLVVALQEKKIKtfideeltrgdqISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTeasnlsgwdsnttrpdakLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLgenfdigtpkIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFdggldrfgpgsriivttrdktilerygTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPdwvntlnnlkrisdsdiyGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFrekpekrsrlwdhKDVCHVLeknkedsyspAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATvfkfehgdcttrsrrrekdgeLAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLEEAQ
Low Complexity Region (SEG)
MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTTRSRRREKDGELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLEEAQ
Disordered region (IsUnstruct)
***CKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHD**********VQKWRAVLTEASNLSGW********AKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFRE*****SRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTT********GELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVL****
Disordered Region (DISOPRED)
*ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTTRSRRREKDGELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLE***
Disordered Region (DISEMBL)
MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTTRSRRREKDGELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLEEAQ
Disordered Region (DISPRO)
MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTTRSRRREKDGELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLEE**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
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TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVNSNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATVFKFEHGDCTTRSRRREKDGELAFNLKQVASAVMCLRWSSDLVFSLLLIASQIKVLKLWGPFHFHAKFHKELLAIVFDWCKERYADFAVKCPVLEEAQ
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	709	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.709	0.439	0.447	1e-113
O82500	1095	Putative disease resistan	no	no	0.715	0.463	0.422	1e-100
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.702	0.382	0.379	5e-89
Q9FL92	1372	Probable WRKY transcripti	no	no	0.650	0.336	0.345	5e-70
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.691	0.258	0.318	1e-57
Q9FH83	1288	Probable WRKY transcripti	no	no	0.651	0.358	0.334	1e-54
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.668	0.293	0.314	2e-53
Q9FHE9	354	Protein PHLOEM PROTEIN 2-	no	no	0.194	0.389	0.421	3e-22
Q9C5Q9	411	Protein PHLOEM PROTEIN 2-	no	no	0.191	0.330	0.420	2e-21
Q9SYC9	571	Vesicle-associated protei	no	no	0.208	0.259	0.353	3e-20

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

 Score =  409 bits (1051), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 234/523 (44%), Positives = 338/523 (64%), Gaps = 20/523 (3%)

Query: 6   YDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEE-LTRGDQISPALVKAIEESMISVI 64
           YDVFLSFRGEDTR  F SHL   L +K IKTF D++ L  G  I   L KAIEES  +++
Sbjct: 12  YDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQFAIV 71

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           +FS+NYA+S+WCL+ELVKI++C  +  Q VIPIFY+VDPS VRNQ  SF  AF +H+ ++
Sbjct: 72  VFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKY 131

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
              + E +Q+WR  L EA+NL G   N  + DA  +++I   I  KL K+S  +S    +
Sbjct: 132 KDDV-EGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKIS--LSYLQNI 188

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF------SQKFEGKYF 238
           +G+++H+E++ SLL IG+  VR++GIWGMGG+GKTTIA  +F+        S +F+G  F
Sbjct: 189 VGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACF 248

Query: 239 MANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQY-IRDRLQRMKVFIVLDDV-N 296
           + +++E      G+  L+N +LS+LL E  +    +  ++ +  RL+  KV IVLDD+ N
Sbjct: 249 LKDIKENKR---GMHSLQNALLSELLREKANYNNEEDGKHQMASRLRSKKVLIVLDDIDN 305

Query: 297 KYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFK 356
           K   LEY  G LD FG GSRII+TTRDK ++E+     IYEV  L  +E+++LF   AF 
Sbjct: 306 KDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQHAFG 363

Query: 357 ENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVL 416
           +    E+  K S    +YAKG PLAL+V GS  H     +W + + ++K  S S I   L
Sbjct: 364 KEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKL 423

Query: 417 KIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKIS-YN 475
           KI YD L  +++ +FLDIACF  G+++++++ IL   +   +YGL +L++KSL+ IS YN
Sbjct: 424 KISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYN 483

Query: 476 KLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
           ++QMHDL+Q+MG+ IV   F++ P +RSRLW  K+V  V+  N
Sbjct: 484 QVQMHDLIQDMGKYIV--NFQKDPGERSRLWLAKEVEEVMSNN 524

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

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

 Score =  365 bits (937), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 222/525 (42%), Positives = 316/525 (60%), Gaps = 18/525 (3%)

Query: 3   SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMIS 62
           S +YDVF SFRGED R+NFLSHL+   + K I TF D+ + R   I   L  AI ES IS
Sbjct: 8   SWRYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTFRDDHIKRSHTIGHELRAAIRESKIS 67

Query: 63  VIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDK 122
           V++FS+NYASS WCLDEL++I+KC ++    V+P+FY VDPS +R QTG F  +F+   +
Sbjct: 68  VVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKFGMSFL---E 124

Query: 123 QFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSD 182
               K  E+   WR  LT+A+N+ G        +A  +  I+ D+LEKL   +    D +
Sbjct: 125 TCCGKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKLN--ATPSRDFN 182

Query: 183 GLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV 242
            L+G+E+H+ ++ SLL +    VR+VGIWG  G+GKTTIA  ++NQ+ + F    FM NV
Sbjct: 183 DLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENV 242

Query: 243 REESEKCG----GL-VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK 297
           RE   + G    GL +HL+ + LSKLL +  D+    +   I +RL+  KV I+LDDV+ 
Sbjct: 243 RESYGEAGLDDYGLKLHLQQRFLSKLLDQK-DLRVRHLGA-IEERLKSQKVLIILDDVDN 300

Query: 298 YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKE 357
             QL+        FG  SRI+VTT++K +L  +  + +Y+V   +  EAL +FC  AFK+
Sbjct: 301 IEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQ 360

Query: 358 NHCPEDLLKHSETAAHYAKGN-PLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVL 416
           +  P D LKH         G+ PLAL+VLGS    K K +W  +L  LK   D ++  VL
Sbjct: 361 S-SPSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVL 419

Query: 417 KIGYDELSWEEKNLFLDIACFFNGDDREHV--MWILNDDYYSVQYGLNVLVNKSLI-KIS 473
           K+GYD L   EK+LFL IAC F+G    ++  M I N+D Y V +GL VL +KSLI K  
Sbjct: 420 KVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTY-VSFGLQVLADKSLIQKFE 478

Query: 474 YNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
             +++MH LL+++G+E+V ++   +P KR  L + K+ C VL  N
Sbjct: 479 NGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNN 523

Arabidopsis thaliana (taxid: 3702)

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

 Score =  329 bits (843), Expect = 5e-89,   Method: Compositional matrix adjust.
 Identities = 197/519 (37%), Positives = 309/519 (59%), Gaps = 21/519 (4%)

Query: 2   ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMI 61
            S +YDVF SFRGED RD+FLSHL+  L+ K I TFID+E+ R   I P L+ AI+ES I
Sbjct: 8   GSRRYDVFPSFRGEDVRDSFLSHLLKELRGKAI-TFIDDEIERSRSIGPELLSAIKESRI 66

Query: 62  SVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHD 121
           +++IFSKNYASS WCL+ELV+I KC+    Q+VIPIF++VD S V+ QTG F   F   +
Sbjct: 67  AIVIFSKNYASSTWCLNELVEIHKCYTNLNQMVIPIFFHVDASEVKKQTGEFGKVF---E 123

Query: 122 KQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDS 181
           +    K  ++ Q W+  L   + ++G+D      +A +++E+  D+L K    S    D 
Sbjct: 124 ETCKAKSEDEKQSWKQALAAVAVMAGYDLRKWPSEAAMIEELAEDVLRKTMTPSDDFGD- 182

Query: 182 DGLIGLESHVEQVRSLLAIGLPDVR-LVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA 240
             L+G+E+H+E ++S+L +   + R +VGIWG  GIGK+TI   ++++ S +F  + F+ 
Sbjct: 183 --LVGIENHIEAIKSVLCLESKEARIMVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFIT 240

Query: 241 NVREESEKCGGL-VHLRNQVLSKLLGENFDIGTPKIPQY--IRDRLQRMKVFIVLDDVNK 297
                     G+ +    ++LS++LG+  DI   KI  +  +  RL++ KV I+LDDV+ 
Sbjct: 241 YKSTSGSDVSGMKLRWEKELLSEILGQK-DI---KIEHFGVVEQRLKQQKVLILLDDVDS 296

Query: 298 YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKE 357
              L+   G  + FG GSRIIV T+D+ +L+ +    IYEVE  + + AL + C  AF +
Sbjct: 297 LEFLKTLVGKAEWFGSGSRIIVITQDRQLLKAHEIDLIYEVEFPSEHLALTMLCRSAFGK 356

Query: 358 NHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLK 417
           +  P+D  + +   A  A   PL L VLGSS   ++K  W+  +  L+   + DI   L+
Sbjct: 357 DSPPDDFKELAFEVAKLAGNLPLGLSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLR 416

Query: 418 IGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNK- 476
           + YD L  +++++FL IAC FNG +  +V  +L D+      G  +L  KSLI+I+ +  
Sbjct: 417 VSYDRLHQKDQDMFLYIACLFNGFEVSYVKDLLKDN-----VGFTMLTEKSLIRITPDGY 471

Query: 477 LQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVL 515
           ++MH+LL+++GREI   + +  P KR  L + +D+  V+
Sbjct: 472 IEMHNLLEKLGREIDRAKSKGNPGKRRFLTNFEDIHEVV 510

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

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

 Score =  266 bits (679), Expect = 5e-70,   Method: Compositional matrix adjust.
 Identities = 176/509 (34%), Positives = 270/509 (53%), Gaps = 48/509 (9%)

Query: 15  EDTRDNFLSHLVVALQEKKIK-TFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASS 73
           E+ R +F+SHL  ALQ K +   FID +    D +S      +E + +SV+I   N   S
Sbjct: 14  EEVRYSFVSHLSKALQRKGVNDVFIDSD----DSLSNESQSMVERARVSVMILPGNRTVS 69

Query: 74  KWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQ 133
              LD+LVK+L C K   Q+V+P+ Y V  S                             
Sbjct: 70  ---LDKLVKVLDCQKNKDQVVVPVLYGVRSSET--------------------------- 99

Query: 134 KWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQ 193
           +W + L      S   S     D++LVKE   D+ EKL  +          IG+ S + +
Sbjct: 100 EWLSALDSKGFSSVHHSRKECSDSQLVKETVRDVYEKLFYMER--------IGIYSKLLE 151

Query: 194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLV 253
           +  ++     D+R VGIWGM GIGKTT+A  VF+Q S +F+   F+ +  +  ++ G   
Sbjct: 152 IEKMINKQPLDIRCVGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYC 211

Query: 254 HLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGP 313
            L  Q L +  G +   GT      +RDRL   +V +VLDDV     +E F GG D FGP
Sbjct: 212 LLEEQFLKENAGAS---GTVTKLSLLRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGP 268

Query: 314 GSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAH 373
            S II+T++DK++      ++IYEV+GLN  EAL+LF  CA  ++   ++L + S     
Sbjct: 269 KSLIIITSKDKSVFRLCRVNQIYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIK 328

Query: 374 YAKGNPLALQVLGSSFHRKSKPDWVN-TLNNLKRISDSDIYGVLKIGYDELSWEEKNLFL 432
           YA G+PLAL + G     K +P  +      LK    +     +K  YD L+  EKN+FL
Sbjct: 329 YANGHPLALNLYGRELMGKKRPPEMEIAFLKLKECPPAIFVDAIKSSYDTLNDREKNIFL 388

Query: 433 DIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIVC 492
           DIACFF G++ ++VM +L    +    G++VLV KSL+ IS N+++MH+L+Q++GR+I+ 
Sbjct: 389 DIACFFQGENVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISENRVRMHNLIQDVGRQIIN 448

Query: 493 QEFREKPEKRSRLWDHKDVCHVLEKNKED 521
           +E R+  ++RSRLW+   + ++LE  +++
Sbjct: 449 RETRQT-KRRSRLWEPCSIKYLLEDKEQN 476

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  224 bits (572), Expect = 1e-57,   Method: Compositional matrix adjust.
 Identities = 170/533 (31%), Positives = 273/533 (51%), Gaps = 43/533 (8%)

Query: 2    ASCKYDVFLSF-RGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESM 60
            +S  YDV + + R + + ++F+SHL  +L  + I  +  E+           V A+ +  
Sbjct: 664  SSKDYDVVIRYGRADISNEDFISHLRASLCRRGISVY--EKFNE--------VDALPKCR 713

Query: 61   ISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKH 120
            + +I+ +  Y  S      L+ IL+      ++V PIFY + P             FV +
Sbjct: 714  VLIIVLTSTYVPSN-----LLNILEHQHTEDRVVYPIFYRLSPY-----------DFVCN 757

Query: 121  DKQFNK-KMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAIS 179
             K + +  + ++ +KW+A L E + + G+ + T + +++L+ EI  D L+ L       +
Sbjct: 758  SKNYERFYLQDEPKKWQAALKEITQMPGY-TLTDKSESELIDEIVRDALKVL-----CSA 811

Query: 180  DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM 239
            D   +IG++  VE++ SLL I   DVR +GIWG  GIGKTTIA  +F + S ++E    +
Sbjct: 812  DKVNMIGMDMQVEEILSLLCIESLDVRSIGIWGTVGIGKTTIAEEIFRKISVQYETCVVL 871

Query: 240  ANVREESEKCGGLVHLRNQVLSKLLG-ENFDIGTPKI-PQYIRDRLQRMKVFIVLDDVNK 297
             ++ +E E   G   +R   LS++L  E   I    I   ++R RLQR ++ ++LDDVN 
Sbjct: 872  KDLHKEVE-VKGHDAVRENFLSEVLEVEPHVIRISDIKTSFLRSRLQRKRILVILDDVND 930

Query: 298  YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKE 357
            Y  ++ F G L+ FGPGSRII+T+R++ +        +YEV+ L+  ++L L      + 
Sbjct: 931  YRDVDTFLGTLNYFGPGSRIIMTSRNRRVFVLCKIDHVYEVKPLDIPKSLLLLDRGTCQI 990

Query: 358  NHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLK 417
               PE     S     ++ GNP  LQ L SS  R    +W      +K  S   I G+ +
Sbjct: 991  VLSPEVYKTLSLELVKFSNGNPQVLQFL-SSIDR----EWNKLSQEVKTTSPIYIPGIFE 1045

Query: 418  IGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKIS-YNK 476
                 L   E+ +FLDIACFFN  D+++V  +L+   +S   G   LV+KSL+ IS +N 
Sbjct: 1046 KSCCGLDDNERGIFLDIACFFNRIDKDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNL 1105

Query: 477  LQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFF 529
            + M   +Q  GREIV QE  ++P  RSRLW+   + HV   +   S    IF 
Sbjct: 1106 VDMLSFIQATGREIVRQESADRPGDRSRLWNADYIRHVFINDTGTSAIEGIFL 1158

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  215 bits (547), Expect = 1e-54,   Method: Compositional matrix adjust.
 Identities = 170/508 (33%), Positives = 261/508 (51%), Gaps = 46/508 (9%)

Query: 15  EDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSK 74
           E+ R +F+SHL  AL+ K I   + +          +  K IE++ +SV++   N   S+
Sbjct: 17  EEVRYSFVSHLSEALRRKGINNVVVDVDIDDLLFKESQAK-IEKAGVSVMVLPGNCDPSE 75

Query: 75  WCLDELVKILKCHKKNI-QLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQ 133
             LD+  K+L+C + N  Q V+ + Y    S++R+Q  S          + + +   ++ 
Sbjct: 76  VWLDKFAKVLECQRNNKDQAVVSVLYG--DSLLRDQWLS----------ELDFRGLSRIH 123

Query: 134 KWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQ 193
           + R    E S            D+ LV+EI  D+ E    +        G IG+ S + +
Sbjct: 124 QSRK---ECS------------DSILVEEIVRDVYETHFYV--------GRIGIYSKLLE 160

Query: 194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLV 253
           + +++      +R VGIWGM GIGKTT+A  VF+Q S  F+   F+ +  +   + G   
Sbjct: 161 IENMVNKQPIGIRCVGIWGMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYC 220

Query: 254 HLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGP 313
            L  Q+L        D    K+   +RDRL   +V +VLDDV      E F  G D  GP
Sbjct: 221 LLEEQLLP-----GNDATIMKLSS-LRDRLNSKRVLVVLDDVRNALVGESFLEGFDWLGP 274

Query: 314 GSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFC-SCAFKENHCPEDLLKHSETAA 372
           GS II+T+RDK +    G ++IYEV+GLN  EA +LF  S + KE+   ++L + S    
Sbjct: 275 GSLIIITSRDKQVFCLCGINQIYEVQGLNEKEARQLFLLSASIKEDMGEQNLQELSVRVI 334

Query: 373 HYAKGNPLALQVLGSSFHRKSKPDWVNT-LNNLKRISDSDIYGVLKIGYDELSWEEKNLF 431
           +YA GNPLA+ V G     K K   + T    LKR     I    K  YD LS  EKN+F
Sbjct: 335 NYANGNPLAISVYGRELKGKKKLSEMETAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIF 394

Query: 432 LDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDLLQEMGREIV 491
           LDIACFF G++  +V+ +L    +     ++VLV+K L+ IS N++ +H L Q++GREI+
Sbjct: 395 LDIACFFQGENVNYVIQLLEGCGFFPHVEIDVLVDKCLVTISENRVWLHKLTQDIGREII 454

Query: 492 CQEFREKPEKRSRLWDHKDVCHVLEKNK 519
             E  +  E+R RLW+   + ++LE N+
Sbjct: 455 NGETVQI-ERRRRLWEPWSIKYLLEYNE 481

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  211 bits (536), Expect = 2e-53,   Method: Compositional matrix adjust.
 Identities = 165/524 (31%), Positives = 251/524 (47%), Gaps = 50/524 (9%)

Query: 2   ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE---ELTRGDQISPALVKAIEE 58
           A C + V +    E    + +SHL  AL+ + I  F+D    + T+   I          
Sbjct: 14  ADCSHSVNIICE-ETVLHSLVSHLSAALRREGISVFVDACGLQETKFFSIKQNQPLTDGA 72

Query: 59  SMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFV 118
            ++ V+I  +      W   + +K+++  + N  +V+P+FY VD S+ R           
Sbjct: 73  RVLVVVISDEVEFYDPW-FPKFLKVIQGWQNNGHVVVPVFYGVD-SLTR----------- 119

Query: 119 KHDKQFNKKMPEKVQKWRAVLTEASNLSGWD----SNTTRPDAKLVKEITADILEKLEKL 174
                        V  W     EA  L+       SN    D++LV+EI  D+  KL   
Sbjct: 120 -------------VYGWANSWLEAEKLTSHQSKILSNNVLTDSELVEEIVRDVYGKLYPA 166

Query: 175 SAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE 234
                     +G+ + + ++  LL     D+R +GIWGM GIGKTT+A  VFN  S  ++
Sbjct: 167 ER--------VGIYARLLEIEKLLYKQHRDIRSIGIWGMPGIGKTTLAKAVFNHMSTDYD 218

Query: 235 GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKI--PQYIRDRLQRMKVFIVL 292
              F+ N  E   K  GL  L  + + K+L + FDI +  I  P   RD+L   ++ +VL
Sbjct: 219 ASCFIENFDEAFHK-EGLHRLLKERIGKILKDEFDIESSYIMRPTLHRDKLYDKRILVVL 277

Query: 293 DDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCS 352
           DDV      E F   LD FG GS II+T+ DK +      ++IY V+GLN +EAL+LF  
Sbjct: 278 DDVRDSLAAESFLKRLDWFGSGSLIIITSVDKQVFAFCQINQIYTVQGLNVHEALQLFSQ 337

Query: 353 CAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDI 412
             F  N   ++  K S     Y  GNPLAL + G     K K +       LK      I
Sbjct: 338 SVFGINEPEQNDRKLSMKVIDYVNGNPLALSIYGRELMGK-KSEMETAFFELKHCPPLKI 396

Query: 413 YGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKI 472
             VLK  Y  LS  EKN+ LDIA FF G+   +VM +L + +Y  +  ++VLV+K ++ I
Sbjct: 397 QDVLKNAYSALSDNEKNIVLDIAFFFKGETVNYVMQLLEESHYFPRLAIDVLVDKCVLTI 456

Query: 473 SYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLE 516
           S N +QM++L+Q+  +EI    F  + E  +R+W+   + ++LE
Sbjct: 457 SENTVQMNNLIQDTCQEI----FNGEIETCTRMWEPSRIRYLLE 496

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FHE9|P2A08_ARATH Protein PHLOEM PROTEIN 2-LIKE A8 OS=Arabidopsis thaliana GN=PP2A8 PE=2 SV=1

 Score =  107 bits (267), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 59/140 (42%), Positives = 83/140 (59%), Gaps = 2/140 (1%)

Query: 8   VFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFS 67
           VF++FRG+D R+ FLS L  A++E  I  FID++   G  +    V+ I+ES ++V+IFS
Sbjct: 16  VFINFRGKDLRNGFLSFLEPAMREANINVFIDKDEVVGTDLVNLFVR-IQESRVAVVIFS 74

Query: 68  KNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKK 127
           K+Y SS+WCLDEL +I  C  +     IPIFY + PS V    G F D F    +++ K 
Sbjct: 75  KDYTSSEWCLDELAEIKDCINQGGLNAIPIFYKLAPSSVLELKGGFGDTFRVLKEKY-KN 133

Query: 128 MPEKVQKWRAVLTEASNLSG 147
            PE+ QKW+  L     L G
Sbjct: 134 DPERTQKWQEALESIPKLKG 153

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C5Q9|P2A05_ARATH Protein PHLOEM PROTEIN 2-LIKE A5 OS=Arabidopsis thaliana GN=PP2A5 PE=2 SV=1

 Score =  104 bits (260), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 58/138 (42%), Positives = 85/138 (61%), Gaps = 2/138 (1%)

Query: 8   VFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFS 67
           VF++FRG+D R  F+S L  AL+++KI  FIDE+  RG  +  +L   I ES I+++IFS
Sbjct: 24  VFINFRGKDLRKGFMSFLKPALKKEKINVFIDEQEERGKYLI-SLFDTIGESKIALVIFS 82

Query: 68  KNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKK 127
           + Y  S WC+DELVKI +   +N  ++IPIFY +D  VV++ TG F D F     ++  +
Sbjct: 83  EGYCESHWCMDELVKIKEYMDQNRLIIIPIFYRLDLDVVKDLTGKFGDNFWDLVDKYQPE 142

Query: 128 MPEKVQKWRAVLTEASNL 145
            P+K+ KW   L     L
Sbjct: 143 -PKKLHKWTEALFSVCEL 159

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SYC9|VAP14_ARATH Vesicle-associated protein 1-4 OS=Arabidopsis thaliana GN=PVA14 PE=2 SV=1

 Score =  100 bits (250), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 53/150 (35%), Positives = 92/150 (61%), Gaps = 2/150 (1%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           +Y VF++FRG++ R++F+  LV A++ +KI  F DE   RG  ++  L + IEES ++V 
Sbjct: 357 QYQVFINFRGDELRNSFVGFLVKAMRLEKINVFTDEVELRGTNLN-YLFRRIEESRVAVA 415

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFS+ Y  S WCLDELVK+ +  ++   +V+P+FY ++ +  +   G+F D     + ++
Sbjct: 416 IFSERYTESCWCLDELVKMKEQMEQGKLVVVPVFYRLNATACKRFMGAFGDNLRNLEWEY 475

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTR 154
             + PE++QKW+  L+   +  G  S+  R
Sbjct: 476 RSE-PERIQKWKEALSSVFSNIGLTSDIRR 504

May play a role in vesicle trafficking.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	709
255561496	876	TMV resistance protein N, putative [Rici	0.713	0.577	0.532	1e-146
224127917	1470	tir-nbs-lrr resistance protein [Populus	0.737	0.355	0.518	1e-145
255564976	944	TMV resistance protein N, putative [Rici	0.710	0.533	0.527	1e-142
255569048	1084	leucine-rich repeat-containing protein,	0.754	0.493	0.518	1e-142
255555357	1094	leucine-rich repeat-containing protein,	0.712	0.461	0.501	1e-136
255555349	1109	leucine-rich repeat containing protein,	0.717	0.458	0.490	1e-132
147768286	1206	hypothetical protein VITISV_033530 [Viti	0.717	0.422	0.517	1e-131
225460354	1174	PREDICTED: TMV resistance protein N-like	0.717	0.433	0.517	1e-131
224145016	1254	tir-nbs-lrr resistance protein [Populus	0.736	0.416	0.505	1e-130
255537139	1137	leucine-rich repeat-containing protein,	0.706	0.440	0.505	1e-130

>gi|255561496|ref|XP_002521758.1| TMV resistance protein N, putative [Ricinus communis] gi|223538971|gb|EEF40568.1| TMV resistance protein N, putative [Ricinus communis]

 Score =  525 bits (1353), Expect = e-146,   Method: Compositional matrix adjust.
 Identities = 277/520 (53%), Positives = 370/520 (71%), Gaps = 14/520 (2%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFLSFRGEDTRDNF SHL  AL +KKI TF+D+E+ RG++ISP++ KAI+ S +SVI
Sbjct: 10  KYDVFLSFRGEDTRDNFTSHLYSALNKKKIFTFMDKEIKRGEEISPSIAKAIKGSKLSVI 69

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFS+ YA SKWCLDEL KIL+C K N Q+VIP+FY VDP  VRNQ GSF  AF KH++  
Sbjct: 70  IFSEKYAFSKWCLDELTKILECKKMNGQIVIPVFYRVDPVHVRNQRGSFACAFAKHEETL 129

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
            ++M EKV+ WR+ L EA ++SGW+S   RP++KL++EI  DI +KL + S   S S GL
Sbjct: 130 KERM-EKVESWRSALNEAGSISGWNSLVARPESKLIEEIVKDISKKLNQTSP--SHSIGL 186

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           +G++S +EQ+ S+L + + DVR++G+WGMGGIGKTT+AG +F+Q S ++E  YF+ NVRE
Sbjct: 187 VGIDSRLEQIESMLCLDMSDVRIIGVWGMGGIGKTTLAGAIFDQISAQYESSYFLGNVRE 246

Query: 245 ESEKCGGLVHLRNQVLSKLLGE-NFDIGTPKIPQ-YIRDRLQRMKVFIVLDDVNKYGQL- 301
           + ++C  L  LR ++ SK+L E N D  TP +   +++DRL R K+ +VLDDV+   QL 
Sbjct: 247 QLKRC-LLAELREKLFSKILEEKNLDTRTPNLGNTFLKDRLSRKKILVVLDDVDSTMQLQ 305

Query: 302 EYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCP 361
           E   G  D FGPGSRIIVT+RDK +L+      IY+VEGLN +EAL+LF   AFK+N   
Sbjct: 306 ELLPGQHDLFGPGSRIIVTSRDKQVLKNV-VDEIYKVEGLNQHEALQLFSLNAFKKNSPT 364

Query: 362 EDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYD 421
            D ++ S   A YAKGNPLAL+VLG +   KSK DW + L  L+ + + +I  VL+  YD
Sbjct: 365 NDRVEISTRVADYAKGNPLALRVLGCALFDKSKEDWESALEKLRNVPNGEIQKVLRFSYD 424

Query: 422 ELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHD 481
            L  EE+N+FLDIACFF G+DR +   IL+  Y SV + ++ L++KSL+ +  +KL+MHD
Sbjct: 425 GLDREERNIFLDIACFFRGEDRNYATKILDGCYSSVGFIISTLIDKSLVSVYRSKLEMHD 484

Query: 482 LLQEMGREIVCQEFREKP--EKRSRLWDHKDVCHVLEKNK 519
           LLQE G  IV    RE+P  EKRSRLW+ KDV +VL K K
Sbjct: 485 LLQETGWSIV----REEPELEKRSRLWNPKDVYYVLTKKK 520

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127917|ref|XP_002329209.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870990|gb|EEF08121.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  523 bits (1347), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 275/530 (51%), Positives = 377/530 (71%), Gaps = 7/530 (1%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFLSFRG+DTRDNF+SHL  AL  K+IKTFID++L RG++I+ AL++ IEES ISVI
Sbjct: 12  KYDVFLSFRGKDTRDNFVSHLRDALCRKQIKTFIDDKLERGEEITGALLRTIEESRISVI 71

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFS+NYASS WC+DELVKIL+C K   Q+V+P+FY+VDPS V  QTGSF +AF + ++ F
Sbjct: 72  IFSRNYASSPWCVDELVKILECKKAYGQIVLPVFYHVDPSDVDQQTGSFGNAFAELERNF 131

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
            +KM +KV +WRA LT A+N+SGWDS  TRP++ LV++I   IL+KL   S+  SD  GL
Sbjct: 132 KQKM-DKVPRWRADLTSAANISGWDSQVTRPESSLVEQIVHHILKKLNYASS--SDLKGL 188

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           +G++S +EQ+ + L   LP+   VGIWGMGG GKTTIAG +FN+ ++++EG YF+ANVR 
Sbjct: 189 VGMDSRMEQIEASLCTKLPEFCFVGIWGMGGTGKTTIAGEIFNKIAREYEGHYFLANVR- 247

Query: 245 ESEKCGGLVHLRNQVLSKLL-GENFDIGTPKIPQ-YIRDRLQRMKVFIVLDDVNKYGQLE 302
           ESEK GGL  +R+++ SK+   EN  I TP+I   +I+DR+ R K+ IV DDVN   Q+E
Sbjct: 248 ESEKNGGLFRIRDELFSKITEEENLHIRTPRIGHPFIKDRICRKKILIVFDDVNDVDQIE 307

Query: 303 YFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPE 362
              GG + FGPGSRII+T+RDK +L++Y   +I+EVEGLN  EAL LF   AFK+N  P 
Sbjct: 308 MLLGGCESFGPGSRIILTSRDKQVLKKYAD-KIFEVEGLNHREALHLFSLHAFKDNQPPY 366

Query: 363 DLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDE 422
           + ++ S  A +YAKGNPLAL+VLGSS   ++  +W + LN +++++   ++ VL+I Y+ 
Sbjct: 367 NYMELSVRAINYAKGNPLALKVLGSSLFGRTTKEWESALNKVEKLTRQKVHSVLRISYEA 426

Query: 423 LSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDL 482
           L  EEK++FLDIACFF G   + V  IL+   +    G +VL+++ LIKIS +K++MHDL
Sbjct: 427 LDSEEKSIFLDIACFFRGHRVDFVKRILDGCGFKTDIGFSVLIDRCLIKISDDKVEMHDL 486

Query: 483 LQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVG 532
           LQEM  ++V +E  ++   +SRLW  KDV  VL  N        IF  V 
Sbjct: 487 LQEMAHDVVRKESLDELGGQSRLWSPKDVYQVLTNNLGTGKVEGIFLDVS 536

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  513 bits (1321), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 273/518 (52%), Positives = 377/518 (72%), Gaps = 14/518 (2%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVF+SFRGEDTRDNF SHL  AL +K+IK F+D++L+RG++IS ALVK IEESM+SVI
Sbjct: 15  KYDVFVSFRGEDTRDNFTSHLYAALHQKQIKAFVDDKLSRGEEISAALVKVIEESMVSVI 74

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFS+NYA S WCLDELVKIL+C K   Q+V+P+FY+VDPS V  Q G F  AF++H+K F
Sbjct: 75  IFSENYAFSPWCLDELVKILECKKTVGQIVLPVFYHVDPSDVAEQKGGFGAAFIEHEKCF 134

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
            +++ +K+QKWRA LTEA+N+SGW S+  R ++KL++EI  DIL+KL  +S++ +DS GL
Sbjct: 135 KERI-DKLQKWRAALTEAANISGWSSSVIRSESKLIQEIAEDILKKLNHMSSS-TDSKGL 192

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           +G+ S ++++  LL + L DVR +G+WGMGG GKTT A VVFN+ S +F+   F+ANV E
Sbjct: 193 VGINSRIDKIELLLCVELADVRFLGLWGMGGAGKTTTAEVVFNRISTQFDSCCFLANVNE 252

Query: 245 ESEKCGGLVHLRNQVLSKLLGE---NFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQL 301
           ESE+ G L+ L+ Q+ SKLLG+   N+  G      + + RL+  KV IVLDDVN   QL
Sbjct: 253 ESERYG-LLKLQRQLFSKLLGQDNVNYAEGI-----FDKSRLKHRKVLIVLDDVNNLRQL 306

Query: 302 EYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCP 361
           E   G  + FGPGSRII+T+RDK +L+   T  IY++E L+ +EAL+LF   AF++  CP
Sbjct: 307 ENLAGEHNWFGPGSRIILTSRDKDVLKN-KTDAIYKIEDLDHHEALQLFSLNAFRQ-ECP 364

Query: 362 E-DLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGY 420
           + D +K S+   +YAKGNPL L+VLGS  ++++  +W + L+ L+R ++ +I  VLK+ Y
Sbjct: 365 KADYMKLSKRVINYAKGNPLGLKVLGSFLYQRNIKEWESALHKLERSTNKEIQNVLKVSY 424

Query: 421 DELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMH 480
           D L  EEK++FLD+ACFFNG+DR+ V  ILN   +S    ++VLV+KSL+ IS N L +H
Sbjct: 425 DGLDDEEKDIFLDVACFFNGEDRDFVTRILNGCGFSADIAISVLVSKSLLTISNNTLAIH 484

Query: 481 DLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
           +LLQ+MG  IV QE  ++P +RSRL   +DV HVL KN
Sbjct: 485 NLLQQMGWGIVRQESTKEPGRRSRLCTSEDVVHVLSKN 522

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255569048|ref|XP_002525493.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223535172|gb|EEF36851.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  512 bits (1319), Expect = e-142,   Method: Compositional matrix adjust.
 Identities = 285/550 (51%), Positives = 367/550 (66%), Gaps = 15/550 (2%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           K+DVFLSFRG+DTRDNF SHL  AL  KKIKTFID  L RG++I+PAL++ IEES+ISVI
Sbjct: 11  KFDVFLSFRGKDTRDNFTSHLYDALCRKKIKTFIDNGLERGEEITPALLRTIEESLISVI 70

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           +FS+NYASS WCLDE+VKIL+C + + Q V+P+FY+VDPS V  Q GSF    V+ +K F
Sbjct: 71  VFSENYASSPWCLDEMVKILECRETHGQAVLPVFYHVDPSDVEEQNGSFALTLVELEKNF 130

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
                +KV KWR  L +A+++SGWDS     +AKLVK I   IL+KL K S+  +D  GL
Sbjct: 131 K----DKVSKWRTDLMKAASISGWDSRAIGSEAKLVKHIVEHILQKLNKASS--TDLKGL 184

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           IGL+SH+ +++ LL IGLPD+R VG+WGM GIGKTTIAG +FN  S +FEG  F+ N++E
Sbjct: 185 IGLDSHIRKIKKLLQIGLPDIRTVGLWGMSGIGKTTIAGAIFNTLSSQFEGCCFLENIKE 244

Query: 245 ESEKCGGLVHLRNQVLSKLLGE-NFDIGTPKI-PQYIRDRLQRMKVFIVLDDVNKYGQLE 302
           ESE+CG LV LR+++LS++L E N  I TP I    +++RL+  KV +VLDDVN   Q+E
Sbjct: 245 ESERCG-LVPLRDKLLSEILMEGNVHIATPSIGSTSLKNRLRHKKVLLVLDDVNDVDQIE 303

Query: 303 YFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPE 362
              G  D FG GSR++VT+RDK +L+      IYEVEGL+ +EAL+LF   AFK+N    
Sbjct: 304 TLIGRCD-FGLGSRVLVTSRDKQVLKNV-VDEIYEVEGLSDDEALQLFNLHAFKDNCSTT 361

Query: 363 DLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDE 422
           D +K S     +A+GNPLAL+VLGSS   +SK DW + L  L+R     I+ VL+  +D 
Sbjct: 362 DKIKLSYRVVKHAQGNPLALKVLGSSLFARSKQDWESALEKLERTPQPKIFHVLRSSFDA 421

Query: 423 LSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDL 482
           L  EEK++FLDIACFF G     V  ILN    S   G++VL  K L+ I  NKL+MHDL
Sbjct: 422 LDDEEKSIFLDIACFFKGQQIGFVKKILNGCGLSAGIGISVLAGKCLVSIQENKLEMHDL 481

Query: 483 LQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGV----GCKFGFD 538
           LQEM +EIV QE  ++  KRSRLW   D C VL KN        IFF             
Sbjct: 482 LQEMAQEIVHQESIKELGKRSRLWSPSDACQVLTKNLGTERVEGIFFDTYKMGAVDLSSR 541

Query: 539 HFCQLVGNVC 548
            F ++VGN C
Sbjct: 542 AFVRIVGNNC 551

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255555357|ref|XP_002518715.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223542096|gb|EEF43640.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  491 bits (1265), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 263/524 (50%), Positives = 359/524 (68%), Gaps = 19/524 (3%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFLSFRGEDTR NF SHL  AL  KKI TFID++L RG++ISP+L+KAIEES ISV+
Sbjct: 22  KYDVFLSFRGEDTRYNFTSHLHAALNGKKIPTFIDDDLERGNEISPSLLKAIEESKISVV 81

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           I S++Y SSKWCL+ELVKIL+C K   Q+VIP+FY VDPS VRNQTGSF+D F +H++  
Sbjct: 82  IISQDYPSSKWCLEELVKILECMKNRGQMVIPVFYRVDPSHVRNQTGSFEDVFARHEESL 141

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
           +    EKVQ WRA L E +NLSGW S +TRP+A+ VKEI   I++KL ++S     S GL
Sbjct: 142 SVSK-EKVQSWRAALKEVANLSGWHSTSTRPEAEAVKEIIEVIVKKLNQMSPNCY-SRGL 199

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           +G+ES ++++ SLL +   +VR+VGIWGMGG+GKTT+A  ++++ + +FE  YF++N RE
Sbjct: 200 VGMESRIQEIESLLCLRSSNVRIVGIWGMGGLGKTTLARAIYDRIAPQFEICYFLSNARE 259

Query: 245 ESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLE-- 302
           + ++C  L  L+NQ+ S LL E   +   +   +I+DRL R KV IV+DD +   QL+  
Sbjct: 260 QLQRC-TLSELQNQLFSTLLEEQSTLNLQR--SFIKDRLCRKKVLIVIDDADDSTQLQEL 316

Query: 303 YFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKEN---- 358
             +   D FG GSRII+T+RDK +L      +IY ++ L  +EAL+LF   AFK++    
Sbjct: 317 LLESEPDYFGSGSRIIITSRDKQVLRNIARDKIYAMQKLKKHEALQLFSLKAFKQDNPTC 376

Query: 359 -HCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLK 417
            HC       +E    YAKGNPLAL VLGS+   K + DW + L  L+R  +  I  VL+
Sbjct: 377 RHC----RLQAERVVKYAKGNPLALTVLGSALFGKREKDWKSALERLERNPNKKIDDVLR 432

Query: 418 IGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYN-- 475
           I YD L  EE+++FLDIACFF G DR+ V   L+  Y S    ++ L+++S+I +S +  
Sbjct: 433 ISYDGLDSEERSIFLDIACFFRGQDRDFVTKTLDGYYGSAHSVISTLIDRSVIMLSSDSS 492

Query: 476 KLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNK 519
           KL +HDLLQEMGR+IV +E +  PE RSRLW  +DVC+VL +N+
Sbjct: 493 KLDLHDLLQEMGRKIVFEESK-NPENRSRLWTPEDVCYVLNENR 535

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255555349|ref|XP_002518711.1| leucine-rich repeat containing protein, putative [Ricinus communis] gi|223542092|gb|EEF43636.1| leucine-rich repeat containing protein, putative [Ricinus communis]

 Score =  480 bits (1236), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 256/522 (49%), Positives = 354/522 (67%), Gaps = 13/522 (2%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFL+FRGEDTR NF SHL  AL +  I TFID EL RG+ +SP+L+KAIEES ISV+
Sbjct: 22  KYDVFLNFRGEDTRINFTSHLHDALLKNNILTFIDNELVRGEALSPSLLKAIEESKISVV 81

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           I S+NY  SKWCL+ELVKIL+C K N Q+VIP+FY VDPS VRNQTGSF DAF +H++  
Sbjct: 82  ILSENYPYSKWCLEELVKILECMKINGQMVIPVFYKVDPSHVRNQTGSFADAFARHEESL 141

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
                +KV+ WRA L + +N+SGWDS  T P+++L+K+I  DI EKL  +S++ S   G 
Sbjct: 142 -LVTEDKVKSWRAALKDVANISGWDSRVTSPESELIKKIIRDIWEKLNIMSSSYSPR-GF 199

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           +G+++ ++Q+  LL + L DVR+VGIWGMGGIGKTT+A  ++++ S +FE   F++N+RE
Sbjct: 200 VGIQTRIKQIECLLCLKLSDVRIVGIWGMGGIGKTTLARAIYDKISHQFESSCFLSNIRE 259

Query: 245 ESEKCGGLVHLRNQVLSKLLGENFDIGTPKI----PQYIRDRLQRMKVFIVLDDVNK--Y 298
           + E+C  L  LR+++ S LL +  +I TP        +I+DRL R KV +V+DD +    
Sbjct: 260 QLERC-TLPQLRDELFSSLLEK--EILTPSTLNLRLSFIKDRLCRKKVLVVIDDADSLTQ 316

Query: 299 GQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKEN 358
            Q    +   D FG GSRII+T+RDK +L      +IY ++ L  +EAL+LF   AFK++
Sbjct: 317 LQELLLESEPDYFGSGSRIIITSRDKQVLRNIARDKIYTMQKLKNHEALQLFSLNAFKQD 376

Query: 359 HCPED-LLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLK 417
           +   D  +  SE    YAKGNPLA++VLGS+   +S+ DW + L  L +I + +I  VL+
Sbjct: 377 YPTSDRCILQSERVIKYAKGNPLAIRVLGSALFNRSEEDWESALERLGKIPNKEIDNVLR 436

Query: 418 IGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKL 477
             YD L  +E+N+FLDI CFF G+ R  V  IL+  Y S    +  L+++SLI +SY  L
Sbjct: 437 TSYDGLDSDEQNIFLDIVCFFRGEHRGLVTKILDGCYPSAHIVITTLIDRSLITVSYGYL 496

Query: 478 QMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNK 519
           ++HDLLQEMGR IV  E +  PE  SRLW  +DVC+VL++NK
Sbjct: 497 KLHDLLQEMGRNIVLNESK-IPESHSRLWIPEDVCYVLKENK 537

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147768286|emb|CAN64759.1| hypothetical protein VITISV_033530 [Vitis vinifera]

 Score =  477 bits (1227), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 267/516 (51%), Positives = 343/516 (66%), Gaps = 7/516 (1%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFLSFRGEDTR +F  HL   L+ K IKTF D++L RG+QISPAL+KAIEES  S+I
Sbjct: 22  KYDVFLSFRGEDTRKSFTDHLHRELRRKWIKTFRDDQLRRGEQISPALLKAIEESRFSII 81

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFSKNYASS WCLDEL KIL C +      IP+FYNVDPS VR QT SF +AF KHD  +
Sbjct: 82  IFSKNYASSSWCLDELTKILDCVEVMGHTAIPVFYNVDPSHVRKQTESFAEAFAKHDHIY 141

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
             K  EKV KWR  LT AS LSG+DS   R + +++ E+   I  KL  + A+ S+ +GL
Sbjct: 142 GDK-SEKVLKWRKALTVASGLSGYDSRD-RHETEVIDEVVTMIFNKL--IDASSSNMEGL 197

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVR 243
           +G+ S ++ +  LL IG  DVR+VGIWGM GIGK+TIA  V+N+   +F EG  F+ NVR
Sbjct: 198 VGMGSRLQDMAQLLDIGSVDVRMVGIWGMAGIGKSTIAYQVYNKIYAQFDEGYCFLPNVR 257

Query: 244 EESEKCGGLVHLRNQVLSKLLGENFDIGT-PKIPQYIRDRLQRMKVFIVLDDVNKYGQLE 302
           EES++  GL +L+ ++LS++ G N + G   +   +I++RL   KV IVLDDV+ Y QLE
Sbjct: 258 EESQR-HGLAYLQEELLSQISGGNLNKGNFNRGINFIKERLHSRKVLIVLDDVDMYEQLE 316

Query: 303 YFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPE 362
              G  D FG GSRII+TT+DKT+L  +G   IY VEGL  NEAL+LFC CAFK +    
Sbjct: 317 VLAGNHDWFGAGSRIIITTKDKTLLNMHGVDAIYNVEGLKYNEALKLFCWCAFKHDLPTA 376

Query: 363 DLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDE 422
           D ++  +    Y +G PLA++VLGS    K+  +W + L+ LKRI   D+  VL+I +D 
Sbjct: 377 DYMQLCKNFVKYIEGLPLAIKVLGSFVKNKTIDEWKSALDKLKRIPHKDVQKVLRISFDG 436

Query: 423 LSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDL 482
           L   +K++FLDIACFF G D++ V  IL    +     + VL   SLI +S NKL MHBL
Sbjct: 437 LDDNQKDIFLDIACFFKGQDKDFVAKILESCDFFPANDIRVLEENSLILVSNNKLCMHBL 496

Query: 483 LQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
           LQEMG EIV QE  + P KRSRLW H +V HVL  N
Sbjct: 497 LQEMGWEIVRQENVKYPGKRSRLWFHDEVNHVLTTN 532

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460354|ref|XP_002263146.1| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  475 bits (1223), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 267/516 (51%), Positives = 343/516 (66%), Gaps = 7/516 (1%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFLSFRGEDTR +F  HL   L+ K IKTF D++L RG+QISPAL+KAIEES  S+I
Sbjct: 22  KYDVFLSFRGEDTRKSFTDHLHRELRRKWIKTFRDDQLRRGEQISPALLKAIEESRFSII 81

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFSKNYASS WCLDEL KIL C +      IP+FYNVDPS VR QT SF +AF KHD  +
Sbjct: 82  IFSKNYASSSWCLDELTKILDCVEVMGHTAIPVFYNVDPSHVRKQTESFAEAFAKHDHIY 141

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
             K  EKV KWR  LT AS LSG+DS   R + +++ E+   I  KL  + A+ S+ +GL
Sbjct: 142 GDK-SEKVLKWRKALTVASGLSGYDSRD-RHETEVIDEVVTMIFNKL--IDASSSNMEGL 197

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVR 243
           +G+ S ++ +  LL IG  DVR+VGIWGM GIGK+TIA  V+N+   +F EG  F+ NVR
Sbjct: 198 VGMGSRLQDMAQLLDIGSVDVRMVGIWGMAGIGKSTIAYQVYNKIYAQFDEGYCFLPNVR 257

Query: 244 EESEKCGGLVHLRNQVLSKLLGENFDIGT-PKIPQYIRDRLQRMKVFIVLDDVNKYGQLE 302
           EES++  GL +L+ ++LS++ G N + G   +   +I++RL   KV IVLDDV+ Y QLE
Sbjct: 258 EESQR-HGLAYLQEELLSQISGGNLNKGNFNRGINFIKERLHSRKVLIVLDDVDMYEQLE 316

Query: 303 YFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPE 362
              G  D FG GSRII+TT+DKT+L  +G   IY VEGL  NEAL+LFC CAFK +    
Sbjct: 317 VLAGNHDWFGAGSRIIITTKDKTLLNMHGVDAIYNVEGLKYNEALKLFCWCAFKHDLPTA 376

Query: 363 DLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDE 422
           D ++  +    Y +G PLA++VLGS    K+  +W + L+ LKRI   D+  VL+I +D 
Sbjct: 377 DYMQLCKNFVKYIEGLPLAIKVLGSFVKNKTIDEWKSALDKLKRIPHKDVQKVLRISFDG 436

Query: 423 LSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDL 482
           L   +K++FLDIACFF G D++ V  IL    +     + VL   SLI +S NKL MH+L
Sbjct: 437 LDDNQKDIFLDIACFFKGQDKDFVAKILESCDFFPANDIRVLEENSLILVSNNKLCMHNL 496

Query: 483 LQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
           LQEMG EIV QE  + P KRSRLW H +V HVL  N
Sbjct: 497 LQEMGWEIVRQENVKYPGKRSRLWFHDEVNHVLTTN 532

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224145016|ref|XP_002325496.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222862371|gb|EEE99877.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  473 bits (1218), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 268/530 (50%), Positives = 362/530 (68%), Gaps = 8/530 (1%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
           KYDVFLSFRGEDTR+NF SHL  AL  KKIKTFID+ L RG++I+PAL+K IEES ISV+
Sbjct: 12  KYDVFLSFRGEDTRNNFTSHLYDALCRKKIKTFIDDGLERGEEITPALLKKIEESRISVV 71

Query: 65  IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           IFSKNYASS WC+DELVKIL+C +   Q+V+P+FY+VDPS V  QTGSF +AF + +  F
Sbjct: 72  IFSKNYASSPWCVDELVKILECKETCGQIVLPVFYHVDPSDVDEQTGSFGNAFSELENIF 131

Query: 125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
             KM +KV +WRA +T A+++SGWDS  T P++KLV E+   I ++L +  A+ S   GL
Sbjct: 132 KGKM-DKVPRWRADMTYAASISGWDSQVTSPESKLVTEVVQTIWKRLNR--ASRSKLRGL 188

Query: 185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
           +G++S +EQ+  LL++   DVR +GIWGMG IGKTTIA   F   S ++EG +F+ N+R+
Sbjct: 189 VGVDSRIEQINKLLSVVPSDVRRIGIWGMGAIGKTTIAEAFFYSISSQYEGCHFLPNIRQ 248

Query: 245 ESEKCGGLVHLRNQVLSKLLGENFD-IGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEY 303
           ESEK G L  LR+++LSKLL E    +GTP IP +IRDRL + KV +VLDDV    Q ++
Sbjct: 249 ESEK-GRLNDLRDELLSKLLEEENLRVGTPHIPTFIRDRLCQKKVLLVLDDVIDVRQFQH 307

Query: 304 FDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPED 363
               +   GPGS ++VT+RD+ +L+      IYEVE LN +EAL+LF   AFK NH P+ 
Sbjct: 308 LI-EMPLIGPGSVLVVTSRDRQVLKNV-VDEIYEVEELNSHEALQLFSLNAFKGNHPPKA 365

Query: 364 LLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDEL 423
            ++ S TA +YAKGNPLALQVLGS    K +  W + LN ++   + +IY +L+IG+D L
Sbjct: 366 YMELSITAINYAKGNPLALQVLGSYLFDKGRQFWESQLNEIESFPELNIYDLLRIGFDAL 425

Query: 424 -SWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHDL 482
                K++FLD+ACFF G   + V  IL+   +    G +VL+++ LIKIS +K++MHDL
Sbjct: 426 RDNNTKSIFLDVACFFRGHRVDFVKRILDGCGFKTDTGFSVLIDRCLIKISDDKVEMHDL 485

Query: 483 LQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVG 532
           LQEM  E+V +E  ++  ++SRLW  KDV  VL  N        IF  V 
Sbjct: 486 LQEMAHEVVRKESVDELGRQSRLWSPKDVYQVLTNNLGTGKVEGIFLDVS 535

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255537139|ref|XP_002509636.1| leucine-rich repeat-containing protein, putative [Ricinus communis] gi|223549535|gb|EEF51023.1| leucine-rich repeat-containing protein, putative [Ricinus communis]

 Score =  472 bits (1214), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 262/518 (50%), Positives = 353/518 (68%), Gaps = 17/518 (3%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISV 63
           KYDVFLSFRGEDTRDNF SHL  AL  K + TF+D  +L  G++I+PA+ KAIEES I++
Sbjct: 15  KYDVFLSFRGEDTRDNFTSHLFAALSRKSVITFMDNNDLHVGEEITPAISKAIEESKIAI 74

Query: 64  IIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQ 123
           +IFS+ YA S+WCL+E+V+I++C +   QLV+P+FY+V PS V      F +AF  +D Q
Sbjct: 75  VIFSERYAFSRWCLNEIVRIIECKETCGQLVLPVFYHVGPSDV----SVFAEAFPSYD-Q 129

Query: 124 FNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDG 183
           F     EKVQKW+  L++A+NLS +DS  TRP++KLV EI    L++L K S +    +G
Sbjct: 130 F-----EKVQKWKNALSKAANLSAFDSRVTRPESKLVDEIVMYTLKQL-KQSYSSDVVEG 183

Query: 184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVR 243
           ++G++S +EQ++ LL+IG  DVR +GIWGMGGIGKTT+A  VF Q + +FEG  F+ANVR
Sbjct: 184 IVGVDSRIEQIKELLSIGSVDVRFLGIWGMGGIGKTTLAEAVFYQIAYQFEGSCFLANVR 243

Query: 244 EESEKCGGLVHLRNQVLSKLLGE-NFDIGTPKIPQ--YIRDRLQRMKVFIVLDDVNKYGQ 300
              EK GGL  L+ ++LSK L + +F I TP I    +++  L+  +V IV+DD N   Q
Sbjct: 244 GNFEKNGGLARLQEELLSKTLEKRDFKIDTPNIGYSFWVKQMLKHRRVLIVVDDANDSEQ 303

Query: 301 LEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHC 360
           L+   G  D FGPGSRIIVT+RDK +L +     IYEV+ L  +EAL+LF    FK+   
Sbjct: 304 LDLLVGSHDWFGPGSRIIVTSRDKQVLTKI-VDDIYEVKELVHHEALQLFNQTTFKKKCV 362

Query: 361 PEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGY 420
           PED    S+    YAKG PLAL+VLGS    KSK +W + L+ LK+        VLKI Y
Sbjct: 363 PEDYSYLSDLVIEYAKGVPLALKVLGSFLFGKSKTEWESALDKLKKAPHRATQNVLKISY 422

Query: 421 DELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMH 480
           D L  EEKN+FLDIACFF G+  E V  IL+   +S + GL +LV+KSLI I  +K++MH
Sbjct: 423 DGLDAEEKNIFLDIACFFRGESVEMVTKILDGCGFSTKIGLCLLVDKSLITILNDKVEMH 482

Query: 481 DLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
           DLLQEMG+EIV QE ++ P +R+RLW+H+D+ HV  +N
Sbjct: 483 DLLQEMGKEIVLQESKQ-PSQRTRLWNHEDILHVFSRN 519

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	709
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.709	0.439	0.447	7e-109
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.709	0.422	0.439	3.5e-105
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.706	0.387	0.434	2.3e-103
TAIR|locus:2155189	980	AT5G49140 [Arabidopsis thalian	0.716	0.518	0.447	1.7e-100
TAIR|locus:2136108	1095	AT4G11170 [Arabidopsis thalian	0.715	0.463	0.422	3.2e-97
TAIR|locus:2118106	1219	AT4G12010 [Arabidopsis thalian	0.717	0.417	0.410	1.1e-95
TAIR|locus:2032602	1163	AT1G72860 [Arabidopsis thalian	0.713	0.435	0.420	1.2e-95
TAIR|locus:2173293	1059	AT5G38340 [Arabidopsis thalian	0.709	0.474	0.412	2.3e-94
TAIR|locus:2076043	1194	RPP1 "recognition of peronospo	0.720	0.427	0.381	8.9e-94
TAIR|locus:2152252	986	AT5G38850 [Arabidopsis thalian	0.719	0.517	0.413	1.6e-93

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

 Score = 1076 (383.8 bits), Expect = 7.0e-109, P = 7.0e-109
 Identities = 234/523 (44%), Positives = 338/523 (64%)

Query:     6 YDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEE-LTRGDQISPALVKAIEESMISVI 64
             YDVFLSFRGEDTR  F SHL   L +K IKTF D++ L  G  I   L KAIEES  +++
Sbjct:    12 YDVFLSFRGEDTRKTFTSHLYEVLNDKGIKTFQDDKRLEYGATIPGELCKAIEESQFAIV 71

Query:    65 IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
             +FS+NYA+S+WCL+ELVKI++C  +  Q VIPIFY+VDPS VRNQ  SF  AF +H+ ++
Sbjct:    72 VFSENYATSRWCLNELVKIMECKTRFKQTVIPIFYDVDPSHVRNQKESFAKAFEEHETKY 131

Query:   125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
                + E +Q+WR  L EA+NL G   N  + DA  +++I   I  KL K+S  +S    +
Sbjct:   132 KDDV-EGIQRWRIALNEAANLKGSCDNRDKTDADCIRQIVDQISSKLCKIS--LSYLQNI 188

Query:   185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF------SQKFEGKYF 238
             +G+++H+E++ SLL IG+  VR++GIWGMGG+GKTTIA  +F+        S +F+G  F
Sbjct:   189 VGIDTHLEKIESLLEIGINGVRIMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACF 248

Query:   239 MANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQY-IRDRLQRMKVFIVLDDV-N 296
             + +++E      G+  L+N +LS+LL E  +    +  ++ +  RL+  KV IVLDD+ N
Sbjct:   249 LKDIKENKR---GMHSLQNALLSELLREKANYNNEEDGKHQMASRLRSKKVLIVLDDIDN 305

Query:   297 KYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFK 356
             K   LEY  G LD FG GSRII+TTRDK ++E+     IYEV  L  +E+++LF   AF 
Sbjct:   306 KDHYLEYLAGDLDWFGNGSRIIITTRDKHLIEKNDI--IYEVTALPDHESIQLFKQHAFG 363

Query:   357 ENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVL 416
             +    E+  K S    +YAKG PLAL+V GS  H     +W + + ++K  S S I   L
Sbjct:   364 KEVPNENFEKLSLEVVNYAKGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKL 423

Query:   417 KIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKIS-YN 475
             KI YD L  +++ +FLDIACF  G+++++++ IL   +   +YGL +L++KSL+ IS YN
Sbjct:   424 KISYDGLEPKQQEMFLDIACFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYN 483

Query:   476 KLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
             ++QMHDL+Q+MG+ IV   F++ P +RSRLW  K+V  V+  N
Sbjct:   484 QVQMHDLIQDMGKYIV--NFQKDPGERSRLWLAKEVEEVMSNN 524

GO:0005515 "protein binding" evidence=IPI

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

 Score = 1023 (365.2 bits), Expect = 3.5e-105, Sum P(2) = 3.5e-105
 Identities = 227/516 (43%), Positives = 326/516 (63%)

Query:     6 YDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVI 64
             YDVF+SFRG D R NFLSHL  +L+   I TF+D+ EL RG+ ISP L+ AIE S I ++
Sbjct:    17 YDVFVSFRGADVRKNFLSHLYDSLRRCGISTFMDDVELQRGEYISPELLNAIETSKILIV 76

Query:    65 IFSKNYASSKWCLDELVKILKCHKKN-IQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQ 123
             + +K+YASS WCLDELV I+K HK N   +V PIF  VDPS +R Q GS+  +F KH   
Sbjct:    77 VLTKDYASSAWCLDELVHIMKSHKNNPSHMVFPIFLYVDPSDIRWQQGSYAKSFSKHK-- 134

Query:   124 FNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDG 183
              N     K++ WR  LT+ +N+SGWD    R +A+ + +IT +IL++L      +     
Sbjct:   135 -NSHPLNKLKDWREALTKVANISGWDIKN-RNEAECIADITREILKRLPCQYLHVPSY-- 190

Query:   184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVR 243
              +GL S ++ + SLL+IG   VR++ I+GMGGIGKTT+A V FN+FS  FEG  F+ N R
Sbjct:   191 AVGLRSRLQHISSLLSIGSDGVRVIVIYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFR 250

Query:   244 EESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEY 303
             E S+K  G  HL++Q+LS +L  N DI    +   +++R +  +V +V+DDV+   QL  
Sbjct:   251 EYSKKPEGRTHLQHQLLSDILRRN-DIEFKGLDHAVKERFRSKRVLLVVDDVDDVHQLN- 308

Query:   304 FDGGLDR--FGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCP 361
                 +DR  FG GSRII+TTR+  +L++      Y  + L+ +E+L LF   AF+ +  P
Sbjct:   309 -SAAIDRDCFGHGSRIIITTRNMHLLKQLRAEGSYSPKELDGDESLELFSWHAFRTSEPP 367

Query:   362 EDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYD 421
             ++ L+HSE    Y  G PLA++VLG+    +S  +W +TL  LKRI + +I   L+I ++
Sbjct:   368 KEFLQHSEEVVTYCAGLPLAVEVLGAFLIERSIREWESTLKLLKRIPNDNIQAKLQISFN 427

Query:   422 ELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMHD 481
              L+ E+K++FLDIACFF G D  +V  IL+         L++L+ + LI IS N + MHD
Sbjct:   428 ALTIEQKDVFLDIACFFIGVDSYYVACILDGCNLYPDIVLSLLMERCLITISGNNIMMHD 487

Query:   482 LLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEK 517
             LL++MGR+IV +   +K  +RSRLW H DV  VL+K
Sbjct:   488 LLRDMGRQIVREISPKKCGERSRLWSHNDVVGVLKK 523

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 1024 (365.5 bits), Expect = 2.3e-103, P = 2.3e-103
 Identities = 225/518 (43%), Positives = 326/518 (62%)

Query:     5 KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISV 63
             K DVF+SFRGED R  F+SHL        IK F D+ +L RG  ISP L+ AI+ S  ++
Sbjct:    17 KTDVFVSFRGEDVRKTFVSHLFCEFDRMGIKAFRDDLDLQRGKSISPELIDAIKGSRFAI 76

Query:    64 IIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQ 123
             ++ S+NYA+S WCLDEL+KI++C+K  I   +PIFY VDPS VR Q GSF +    H  +
Sbjct:    77 VVVSRNYAASSWCLDELLKIMECNKDTI---VPIFYEVDPSDVRRQRGSFGEDVESHSDK 133

Query:   124 FNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDG 183
                   EKV KW+  L + + +SG DS     D+KL+K+I  DI +KL  +S +  DS G
Sbjct:   134 ------EKVGKWKEALKKLAAISGEDSRNW-DDSKLIKKIVKDISDKL--VSTSWDDSKG 184

Query:   184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVR 243
             LIG+ SH++ ++S+++I   DVR++GIWGMGG+GKTTIA  ++NQ S +F+   FM NV+
Sbjct:   185 LIGMSSHMDFLQSMISIVDKDVRMLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFMENVK 244

Query:   244 EESEKCGGLVHLRNQVLSKLLGENFDIGTPKIP--QYIRDRLQRMKVFIVLDDVNKYGQL 301
             E   + G +  L+ + L ++  E        +     I++R +   VFIVLDDV++  QL
Sbjct:   245 EVCNRYG-VRRLQVEFLCRMFQERDKEAWSSVSCCNIIKERFRHKMVFIVLDDVDRSEQL 303

Query:   302 EYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHC- 360
                      FGPGSRIIVTTRD+ +L  +G + +Y+V+ L   EAL+LFC+ AF+E    
Sbjct:   304 NELVKETGWFGPGSRIIVTTRDRHLLLSHGINLVYKVKCLPKKEALQLFCNYAFREEIIL 363

Query:   361 PEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGY 420
             P    + S  A +YA G PLAL+VLGS  +R+S+ +W +TL  LK    SDI  VL++ Y
Sbjct:   364 PHGFEELSVQAVNYASGLPLALRVLGSFLYRRSQIEWESTLARLKTYPHSDIMEVLRVSY 423

Query:   421 DELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQMH 480
             D L  +EK +FL I+CF+N    ++V  +L+   Y+ + G+ +L  KSLI  S   +++H
Sbjct:   424 DGLDEQEKAIFLYISCFYNMKQVDYVRKLLDLCGYAAEIGITILTEKSLIVESNGCVKIH 483

Query:   481 DLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
             DLL++MGRE+V Q+    P +R  LWD +D+CH+L +N
Sbjct:   484 DLLEQMGRELVRQQAVNNPAQRLLLWDPEDICHLLSEN 521

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2155189 AT5G49140 [Arabidopsis thaliana (taxid:3702)]

 Score = 997 (356.0 bits), Expect = 1.7e-100, P = 1.7e-100
 Identities = 235/525 (44%), Positives = 319/525 (60%)

Query:     2 ASC-KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESM 60
             +SC KYDVF SFRGED R NFLSHL+   + K I TF D+ + R   I   L +A+ +S 
Sbjct:    10 SSCWKYDVFPSFRGEDVRGNFLSHLMKEFESKGIVTFKDDLIERSQTIGLELKEAVRQSK 69

Query:    61 ISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKH 120
             I V+IFSKNYASS WCLDELV+ILKC  K  + +IPIFY V+PS VRNQTG F   F   
Sbjct:    70 IFVVIFSKNYASSSWCLDELVEILKC--KEERRLIPIFYKVNPSDVRNQTGKFGRGF--- 124

Query:   121 DKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISD 180
              +    K  E   KW+A LTEA+N++G DS + + +A  + +I  DIL KL    +  +D
Sbjct:   125 RETCEGKNDETQNKWKAALTEAANIAGEDSQSWKNEADFLTKIAKDILAKLNGTPS--ND 182

Query:   181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA 240
              + +IG+ESH+E++  LL +   DVR+VGIWG  GIGKTTIA V+ ++FS  F    FM 
Sbjct:   183 FENIIGIESHMEKMVQLLCLNDDDVRMVGIWGPAGIGKTTIARVLHSRFSGDFRFTVFME 242

Query:   241 NVREESEKC---GGLVHLRNQVLSKLLGENFDIGTPKIPQY--IRDRLQRMKVFIVLDDV 295
             NVR   ++    GG  +L+ ++  + L   F+    KI     I +RL++ KV IVL DV
Sbjct:   243 NVRGNYQRIVDSGGEYNLQARLQKEFLPIIFNQKDRKINHLWKIEERLKKQKVLIVLGDV 302

Query:   296 NKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNE-ALRLFCSCA 354
             +K  QLE        FGPGSRIIVTT+DK IL  +  + IYEV+ L C + AL + C  A
Sbjct:   303 DKVEQLEALANETRWFGPGSRIIVTTKDKQILVGHEINHIYEVK-LPCRKTALEILCLYA 361

Query:   355 FKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYG 414
             FK+N  P+D +      A  +   PL L+VLGS    KSK  W   L  L    D  +  
Sbjct:   362 FKQNVAPDDFMDVVVEVAELSGHLPLGLRVLGSHMRGKSKDRWKLELGRLTTSLDEKVEK 421

Query:   415 VLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISY 474
             +LKI YD+L   +K LFL IAC FNG++ + V  +L +    V  GL +L++KSLI+I+ 
Sbjct:   422 ILKISYDDLHIRDKALFLHIACMFNGENIDLVKQMLVNSDLDVSLGLQLLLDKSLIQIND 481

Query:   475 NK-LQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
             ++ + MH LL +MG+E+VCQ   E P KR  L++ K+ C++L  N
Sbjct:   482 DREIVMHSLLLKMGKEVVCQHSSE-PGKRQFLFNTKETCNILSNN 525

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

 Score = 966 (345.1 bits), Expect = 3.2e-97, P = 3.2e-97
 Identities = 222/525 (42%), Positives = 316/525 (60%)

Query:     3 SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMIS 62
             S +YDVF SFRGED R+NFLSHL+   + K I TF D+ + R   I   L  AI ES IS
Sbjct:     8 SWRYDVFPSFRGEDVRNNFLSHLLKEFESKGIVTFRDDHIKRSHTIGHELRAAIRESKIS 67

Query:    63 VIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDK 122
             V++FS+NYASS WCLDEL++I+KC ++    V+P+FY VDPS +R QTG F  +F++   
Sbjct:    68 VVLFSENYASSSWCLDELIEIMKCKEEQGLKVMPVFYKVDPSDIRKQTGKFGMSFLE--- 124

Query:   123 QFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSD 182
                 K  E+   WR  LT+A+N+ G        +A  +  I+ D+LEKL    +   D +
Sbjct:   125 TCCGKTEERQHNWRRALTDAANILGDHPQNWDNEAYKITTISKDVLEKLNATPSR--DFN 182

Query:   183 GLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV 242
              L+G+E+H+ ++ SLL +    VR+VGIWG  G+GKTTIA  ++NQ+ + F    FM NV
Sbjct:   183 DLVGMEAHIAKMESLLCLESQGVRIVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENV 242

Query:   243 REESEKCG----GL-VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK 297
             RE   + G    GL +HL+ + LSKLL +  D+    +   I +RL+  KV I+LDDV+ 
Sbjct:   243 RESYGEAGLDDYGLKLHLQQRFLSKLLDQK-DLRVRHLGA-IEERLKSQKVLIILDDVDN 300

Query:   298 YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKE 357
               QL+        FG  SRI+VTT++K +L  +  + +Y+V   +  EAL +FC  AFK+
Sbjct:   301 IEQLKALAKENQWFGNKSRIVVTTQNKQLLVSHDINHMYQVAYPSKQEALTIFCQHAFKQ 360

Query:   358 NHCPEDLLKHSETAAHYAKGN-PLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVL 416
             +  P D LKH         G+ PLAL+VLGS    K K +W  +L  LK   D ++  VL
Sbjct:   361 SS-PSDDLKHLAIEFTTLAGHLPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVL 419

Query:   417 KIGYDELSWEEKNLFLDIACFFNGDDREHV--MWILNDDYYSVQYGLNVLVNKSLI-KIS 473
             K+GYD L   EK+LFL IAC F+G    ++  M I N+D Y V +GL VL +KSLI K  
Sbjct:   420 KVGYDGLHDHEKDLFLHIACIFSGQHENYLKQMIIANNDTY-VSFGLQVLADKSLIQKFE 478

Query:   474 YNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
               +++MH LL+++G+E+V ++   +P KR  L + K+ C VL  N
Sbjct:   479 NGRIEMHSLLRQLGKEVVRKQSIYEPGKRQFLMNAKETCGVLSNN 523

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0010193 "response to ozone" evidence=IEP

TAIR|locus:2118106 AT4G12010 [Arabidopsis thaliana (taxid:3702)]

 Score = 930 (332.4 bits), Expect = 1.1e-95, Sum P(2) = 1.1e-95
 Identities = 218/531 (41%), Positives = 311/531 (58%)

Query:     2 ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMI 61
             +S ++DVFLSFRG DTR+NF  HL  AL+ + I +FID+ L RGD ++ AL   IE+S I
Sbjct:     7 SSAEFDVFLSFRGFDTRNNFTGHLQKALRLRGIDSFIDDRLRRGDNLT-ALFDRIEKSKI 65

Query:    62 SVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHD 121
             ++I+FS NYA+S WCL ELVKIL+C   N QLV+PIFY VD S V  Q  SF   F   +
Sbjct:    66 AIIVFSTNYANSAWCLRELVKILECRNSNQQLVVPIFYKVDKSDVEKQRNSFAVPFKLPE 125

Query:   122 KQFNKKMPEKVQKWRAVLTEASNLSGWD-SNTTRPDAKLVKEITADILEKLEKLSAAISD 180
               F    PE++  W+A L  ASN+ G+     +  +AKLV EI  D  +KL  L  A S 
Sbjct:   126 LTFPGVTPEEISSWKAALASASNILGYVVKEISTSEAKLVDEIAVDTFKKLNDL--APSG 183

Query:   181 SDGLIGLESHVEQVRSLLAI-GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM 239
             ++GL+G+ES ++ +  LL+   L  V ++GI GM GIGKTT+A  ++ +   +F+G  F+
Sbjct:   184 NEGLVGIESRLKNLEKLLSWEDLDTVHIIGIVGMVGIGKTTLADCLYGRMRGQFDGSCFL 243

Query:   240 ANVREESEKCGGLVHLRNQVLSKLLGE-NFDIGTP-KIPQYIRDRLQRMKVFIVLDDVNK 297
              N+RE S +  GL  L  ++ S +L + + +IG P    +    RL+  ++ IVLDDVN 
Sbjct:   244 TNIRENSGR-SGLESLLQKLFSTVLNDRDLEIGAPGNAHERFERRLKSKRLLIVLDDVND 302

Query:   298 YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKE 357
               Q+ Y  G    +  GSRII+TTRD  ++E     R Y +  LN  EAL+LF   AF  
Sbjct:   303 EKQIRYLMGHCKWYQGGSRIIITTRDSKLIETI-KGRKYVLPKLNDREALKLFSLNAFSN 361

Query:   358 NHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLK 417
             +   ++    +     YAKG+PLAL+VLGS    +    W   L+ LK  S  DIY VL+
Sbjct:   362 SFPLKEFEGLTNMVLDYAKGHPLALKVLGSDLCERDDLYWEAKLDRLKSRSHGDIYEVLE 421

Query:   418 IGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKL 477
               Y+EL+ E+KN+FLDIACFF  ++ ++V  +LN     V   +  LV+K LI +S N++
Sbjct:   422 TSYEELTTEQKNVFLDIACFFRSENVDYVTSLLNSHGVDVSGVVKDLVDKCLITLSDNRI 481

Query:   478 QMHDLLQEMGREIV----------CQEFREKPEK---RSRLWDHKDVCHVL 515
             +MHD+LQ M +EI           C+       +     RLWD +D+C +L
Sbjct:   482 EMHDMLQTMAKEISLKVETIGIRDCRWLSRHGNQCQWHIRLWDSEDICDLL 532

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009963 "positive regulation of flavonoid biosynthetic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

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

 Score = 951 (339.8 bits), Expect = 1.2e-95, P = 1.2e-95
 Identities = 220/523 (42%), Positives = 315/523 (60%)

Query:     5 KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEE-LTRGDQISPALVKAIEESMISV 63
             KYDVFLSFRGEDTR N +SHL   L +K + TF D++ L  GD IS  + +AI+ S  ++
Sbjct:    11 KYDVFLSFRGEDTRKNIVSHLHKQLVDKGVVTFKDDKKLELGDSISEEISRAIQNSTYAL 70

Query:    64 IIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQ 123
             +I S+NYASS WCLDEL  ++  H KN   V+PIFY VDPS VR+QTGSF   F   DK 
Sbjct:    71 VILSENYASSSWCLDELRMVMDLHLKNKIKVVPIFYGVDPSHVRHQTGSF--TF---DKY 125

Query:   124 FNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDG 183
              + KMP KV  WR  LT+ ++L+G D  T   +A +++EI  DI +KL  +   +  SD 
Sbjct:   126 QDSKMPNKVTTWREALTQIASLAGKDFETCEDEASMIEEIVKDISKKL-LIMQPVDFSD- 183

Query:   184 LIGLESHVEQVRSLLAIGLP-DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV 242
             ++G+ +H+E++  LL++    +VR++GIWGMGGIGKTTIA  +F+QFSQ F  + F+ NV
Sbjct:   184 IVGMNAHMERLSPLLSMDSENEVRMIGIWGMGGIGKTTIAKCLFDQFSQGFPARCFLENV 243

Query:   243 REESEKCGGLVHLRNQVLSKLLG---ENFDIGTPKI-PQYIRDRLQRMKVFIVLDDVNKY 298
              +   K GG+  L  + LS  LG   +       K+ PQ I+ R    KVF+VLD+V+  
Sbjct:   244 SKIYRK-GGVSSLAEKFLSTTLGLSKKKMKGSGVKLGPQEIKARFGCRKVFVVLDNVDDM 302

Query:   299 GQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKEN 358
              Q+  F      FGPGSRII+TTRDK +L  YG   +YEV+ ++ + AL+LF   AFK  
Sbjct:   303 RQMHAFAQESSWFGPGSRIIITTRDKGLLNTYGVRTVYEVKCMDNDAALQLFNQLAFKGA 362

Query:   359 HCPEDLL-KHSETAAHYAKGNPLALQVLGSSFHRK-SKPDWVNTLNNLKRISDSDIYGVL 416
               P +L  K S  A+  A+G P+A++  G  F R  S  +W + L       D  +  +L
Sbjct:   363 LPPSELYEKLSIRASWLAQGLPVAIEAYGLFFRRMTSLKEWDDALCRFIEAPDESVMEIL 422

Query:   417 KIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNK 476
             KI YD L   +KN+FL +AC FNG+       +L+D       GL +L  KSLI+I+ + 
Sbjct:   423 KISYDGLEETDKNVFLHVACLFNGEPLRRATTLLDDGVLQGCLGLKILAEKSLIEITASG 482

Query:   477 -LQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKN 518
              ++MH+L+ +  R IV QE  ++   R  LW+  ++  +L++N
Sbjct:   483 YIKMHNLVDQTARAIVNQESMQRRHGRGVLWNPYEIYELLKRN 525

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2173293 AT5G38340 [Arabidopsis thaliana (taxid:3702)]

 Score = 939 (335.6 bits), Expect = 2.3e-94, P = 2.3e-94
 Identities = 219/531 (41%), Positives = 318/531 (59%)

Query:     3 SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMIS 62
             S KYDVF SF G D R  FLSH++   + K I  FID ++ R   I P L +AI  S I+
Sbjct:    54 SRKYDVFPSFHGADVRKTFLSHMLKEFKRKGIVPFIDNDIDRSKSIGPELDEAIRGSKIA 113

Query:    63 VIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDK 122
             +++ SKNYASS WCL+ELV+I KC K   Q V+ IFY VDP+ V+ QTG F   F   ++
Sbjct:   114 IVMLSKNYASSSWCLNELVEITKCRKDLNQTVMTIFYGVDPTDVKKQTGEFGKVF---ER 170

Query:   123 QFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSD 182
                 K  E+V+ WR VL  A+ ++G   +    +A ++++I+ D+   L + S +  D D
Sbjct:   171 TCESKTEEQVKTWREVLDGAATIAGEHWHIWDNEASMIEKISIDVSNILNRSSPS-RDFD 229

Query:   183 GLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV 242
              LIG+E+H+E+++SLL++   +V+++GIWG  GIGKTTIA V++N+FS  F    FM N+
Sbjct:   230 DLIGMEAHMEKMKSLLSLHSNEVKMIGIWGPSGIGKTTIARVLYNRFSGDFGLSVFMDNI 289

Query:   243 RE-------ESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQY--IRDRLQRMKVFIVLD 293
             +E        S+     +HL+NQ++S++          KI     + DRL+  KV IVLD
Sbjct:   290 KELMHTRPVGSDDYSAKLHLQNQLMSEITNHK----ETKITHLGVVPDRLKDNKVLIVLD 345

Query:   294 DVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSC 353
              +++  QL+        FGPGSRII+TT+D+ +LE +  + IY+VE  +  EA ++FC+ 
Sbjct:   346 SIDQSIQLDAIAKETQWFGPGSRIIITTQDQKLLEAHDINNIYKVEFPSKYEAFQIFCTY 405

Query:   354 AFKENHCPEDLLKHSETAAHYAKGN-PLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDI 412
             AF +N  P+D  +          G  PL L+V+GS F R SK DWV  L  LK   D++I
Sbjct:   406 AFGQNF-PKDGFEKLAWEVTDLLGELPLGLRVMGSHFRRMSKDDWVIALPRLKTRLDANI 464

Query:   413 YGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIK- 471
               +LK  YD LS E+K+LFL IAC FN ++   V   L  D+   ++GL++L  KSLI  
Sbjct:   465 QSILKFSYDALSPEDKDLFLHIACLFNNEEIVKVEDYLALDFLDARHGLHLLAEKSLIDL 524

Query:   472 --ISYNKLQMHDLLQEMGREIVC-----QEFREKPEKRSRLWDHKDVCHVL 515
               ++Y  L+MH+LL+++G+EIV         RE PEKR  L D KD+C VL
Sbjct:   525 EGVNYKVLKMHNLLEQLGKEIVRYHPAHHSIRE-PEKRQFLVDTKDICEVL 574

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2076043 RPP1 "recognition of peronospora parasitica 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 911 (325.7 bits), Expect = 8.9e-94, Sum P(2) = 8.9e-94
 Identities = 200/524 (38%), Positives = 309/524 (58%)

Query:     5 KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
             K+DVF SF G D R  FLSH++ + + K I TFID  + R   I P L +AI+ S I+++
Sbjct:    97 KHDVFPSFHGADVRRTFLSHIMESFRRKGIDTFIDNNIERSKSIGPELKEAIKGSKIAIV 156

Query:    65 IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
             + S+ YASS WCLDEL +I+KC +   Q+V+ IFY VDP+ ++ QTG F  AF K  +  
Sbjct:   157 LLSRKYASSSWCLDELAEIMKCRQMVGQIVMTIFYEVDPTDIKKQTGEFGKAFTKTCRG- 215

Query:   125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
               K  E+V++WR  L + + ++G+ S++ R +A ++++I+ D+   L   + +  D DGL
Sbjct:   216 --KPKEQVERWRKALEDVATIAGYHSHSWRNEADMIEKISTDVSNMLNSFTPS-RDFDGL 272

Query:   185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV-- 242
             +G+ +H++ +  LL + L +VR++GIWG  GIGKTTIA  +FNQ S +F+    M N+  
Sbjct:   273 VGMRAHMDMLEQLLRLDLDEVRMIGIWGPPGIGKTTIARFLFNQVSDRFQLSAIMVNIKG 332

Query:   243 ---REESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG 299
                R   ++    + L+NQ+LS+++    DI    +    ++RL+  KVF+VLD+V++ G
Sbjct:   333 CYPRPCFDEYSAQLQLQNQMLSQMINHK-DIMISHLG-VAQERLRDKKVFLVLDEVDQLG 390

Query:   300 QLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENH 359
             QL+        FGPGSRII+TT D  +L+ +G + +Y+VE  + +EA ++FC  AF +  
Sbjct:   391 QLDALAKETRWFGPGSRIIITTEDLGVLKAHGINHVYKVEYPSNDEAFQIFCMNAFGQKQ 450

Query:   360 CPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIG 419
               E   + +      A   PL L+VLGS+   KSK +W  TL  LK   D  I  +++  
Sbjct:   451 PHEGFDEIAWEVTCLAGELPLGLKVLGSALRGKSKREWERTLPRLKTSLDGKIGSIIQFS 510

Query:   420 YDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYNKLQM 479
             YD L  E+K LFL IAC FNG+    V  +L   +  V+ GL++L  KSLI     ++ M
Sbjct:   511 YDVLCDEDKYLFLYIACLFNGESTTKVKELLGK-FLDVKQGLHLLAQKSLISFDGERIHM 569

Query:   480 HDLLQEMGREIVCQEFREKP-EKRSRLWDHKDVCHVLEKNKEDS 522
             H LL++ GRE   ++F      KR  L   + +C VL+ +  DS
Sbjct:   570 HTLLEQFGRETSRKQFVHHGFTKRQLLVGARGICEVLDDDTTDS 613

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0002239 "response to oomycetes" evidence=IDA

GO:0000139 "Golgi membrane" evidence=IDA

GO:0005789 "endoplasmic reticulum membrane" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0009817 "defense response to fungus, incompatible interaction" evidence=IMP;TAS

GO:0030275 "LRR domain binding" evidence=ISS

TAIR|locus:2152252 AT5G38850 [Arabidopsis thaliana (taxid:3702)]

 Score = 931 (332.8 bits), Expect = 1.6e-93, P = 1.6e-93
 Identities = 221/534 (41%), Positives = 308/534 (57%)

Query:     5 KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVI 64
             +Y+VF SF G D R  FLSHL        I  F D+ + R   I+PAL++AI ES IS++
Sbjct:     8 RYNVFPSFHGGDIRKTFLSHLRKQFNSNGITMFDDQGIERSQTIAPALIQAIRESRISIV 67

Query:    65 IFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
             + SKNYASS WCL+ELV+ILKC  K++  V+PIFY VDPS VR QTG F  AF    K  
Sbjct:    68 VLSKNYASSSWCLNELVEILKC--KDV--VMPIFYEVDPSDVRKQTGDFGKAFKNSCKS- 122

Query:   125 NKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGL 184
               K  E+ Q+W   L    N++G  S     +A ++++I  D+ +KL    +   D D  
Sbjct:   123 --KTKEERQRWIQALIFVGNIAGEHSLKWENEADMIEKIAKDVSDKLNATPS--KDFDAF 178

Query:   185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE 244
             +GLE H+ ++ SLL +    VR+VGI G  GIGKTTIA  + +  S  F+   FM NVR 
Sbjct:   179 VGLEFHIRELSSLLYLDYEQVRIVGICGPAGIGKTTIARALQSLLSSNFQRSCFMENVRG 238

Query:   245 ES----EKCGGLVHLRNQVLSKLLGENFDIGTPKIPQY--IRDRLQRMKVFIVLDDVNKY 298
                   ++ G  + L+ ++LSK++ +    G  +I     IRDRL   KV I+LDDVN  
Sbjct:   239 SLNIGLDEYGLKLDLQERLLSKIMNQK---GM-RIEHLGTIRDRLHDQKVLIILDDVNDL 294

Query:   299 GQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKEN 358
                   D     FGPGSRIIVTT D  +L+++  + +Y V+  +  EAL +FC CAF+++
Sbjct:   295 DLYALADQ-TTWFGPGSRIIVTTEDNELLQKHDINNVYHVDFPSRKEALEIFCRCAFRQS 353

Query:   359 HCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKI 418
               P+ +LK +E         PL L V+GSS H K++ +W   +  L+   D D    L++
Sbjct:   354 SAPDTILKLAERVTELCGNLPLGLCVIGSSLHGKTEDEWEILIRRLEISLDRDNEAQLRV 413

Query:   419 GYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKISYN-KL 477
             GYD L   E+ LFL IA FFN  DR+ VM +L D    V+YGL  L NKSLI IS N K+
Sbjct:   414 GYDSLHENEQALFLSIAVFFNYKDRQLVMAMLLDSNLDVEYGLRTLANKSLIHISRNEKI 473

Query:   478 QMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGV 531
              MH+LLQ +GR+ + Q  R++P KR  L D  ++C+VLE + +      I F +
Sbjct:   474 VMHNLLQHVGRQAI-Q--RQEPWKRHILIDADEICNVLENDTDARIVSGISFDI 524

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: eugene3.01250003 tir-nbs-lrr resistance protein (1470 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	709
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-123
pfam01582	135	pfam01582, TIR, TIR domain	2e-40
smart00255	140	smart00255, TIR, Toll - interleukin 1 - resistance	4e-38
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	9e-33
PLN03194	187	PLN03194, PLN03194, putative disease resistance pr	1e-11
pfam13676	102	pfam13676, TIR_2, TIR domain	1e-10

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

 Score =  395 bits (1016), Expect = e-123
 Identities = 217/528 (41%), Positives = 309/528 (58%), Gaps = 25/528 (4%)

Query: 6   YDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVII 65
           YDVF SF GED R  FLSH +  L  K I  F D E+ R   + P L +AI +S I+V++
Sbjct: 13  YDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVV 72

Query: 66  FSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFN 125
           FSKNYASS WCL+EL++I++C ++  QLVIP+FY +DPS VR QTG F +AF K  +  N
Sbjct: 73  FSKNYASSSWCLNELLEIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQ--N 130

Query: 126 KKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDGLI 185
           K   EK+Q W+  LT+ +N+ G+ S     +AK+++EI  D+L KL       +D +  +
Sbjct: 131 KTEDEKIQ-WKQALTDVANILGYHSQNWPNEAKMIEEIANDVLGKL--NLTPSNDFEDFV 187

Query: 186 GLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM--ANVR 243
           G+E H+ ++ SLL +   +VR+VGIWG  GIGKTTIA  +F++ S++F+   F+  A + 
Sbjct: 188 GIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFIS 247

Query: 244 EESEKCGGL--------VHLRNQVLSKLLGENFDIGTPKIPQY--IRDRLQRMKVFIVLD 293
           +  E             +HL+   LS++L +  DI   KI     + +RL+  KV I +D
Sbjct: 248 KSMEIYSSANPDDYNMKLHLQRAFLSEILDKK-DI---KIYHLGAMEERLKHRKVLIFID 303

Query: 294 DVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNE-ALRLFCS 352
           D++    L+   G    FG GSRIIV T+DK  L  +G   IYEV  L  NE AL +FC 
Sbjct: 304 DLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEV-CLPSNELALEMFCR 362

Query: 353 CAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDI 412
            AFK+N  P+  ++ +   A  A   PL L VLGS    + K DW++ L  L+   D  I
Sbjct: 363 SAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKI 422

Query: 413 YGVLKIGYDELS-WEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIK 471
              L++ YD L+  ++K +F  IAC FNG+    +  +L +    V  GL  LV+KSLI 
Sbjct: 423 EKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIH 482

Query: 472 ISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNK 519
           +  + ++MH LLQEMG+EIV  +  E P +R  L D KD+C VLE N 
Sbjct: 483 VREDIVEMHSLLQEMGKEIVRAQSNE-PGEREFLVDAKDICDVLEDNT 529

syringae 6; Provisional. Length = 1153

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

 Score =  143 bits (364), Expect = 2e-40
 Identities = 65/136 (47%), Positives = 91/136 (66%), Gaps = 4/136 (2%)

Query: 8   VFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIF 66
           VF+SF G+D RD F+SHL+  L+EK IK  ID+ +   G+ I   L +AIE+S  +++IF
Sbjct: 1   VFVSFSGKDDRDTFVSHLLKELEEKGIKLCIDDRDELPGESILENLFEAIEKSRRAIVIF 60

Query: 67  SKNYASSKWCLDELVKILKCHKK--NIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQF 124
           S NYASS+WCLDELV+I+KC  +    ++++PIFY VDPS VR Q+G F  AF+K  K  
Sbjct: 61  SSNYASSEWCLDELVEIVKCALEGGGKKVILPIFYKVDPSDVRPQSGKFGKAFLKTLKWS 120

Query: 125 NKKMPEKVQKWRAVLT 140
             K   K++ W+  L 
Sbjct: 121 GDKED-KIRFWKKALY 135

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

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

 Score =  138 bits (349), Expect = 4e-38
 Identities = 59/143 (41%), Positives = 84/143 (58%), Gaps = 5/143 (3%)

Query: 5   KYDVFLSFRG-EDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISV 63
           +YDVF+S+ G ED R+ FLSHL+  L+   +  FID+    G      + +AIE+S I++
Sbjct: 1   EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGG-DLEEIDEAIEKSRIAI 59

Query: 64  IIFSKNYASSKWCLDELVKILKCHKKNIQL-VIPIFYNVDPSVVRNQTGSFKDAFVKHDK 122
           ++ S NYA S+WCLDELV  L+   +   L VIPIFY V PS VR Q G F+  F K+  
Sbjct: 60  VVLSPNYAESEWCLDELVAALENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVFKKNYL 119

Query: 123 QFNKKMPEKVQKWRAVLTEASNL 145
           ++ +   EK Q W+  L    + 
Sbjct: 120 KWPED--EKEQFWKKALYAVPSK 140

Length = 140

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

 Score =  127 bits (321), Expect = 9e-33
 Identities = 78/267 (29%), Positives = 125/267 (46%), Gaps = 24/267 (8%)

Query: 188 ESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK--FEGKYFMANVREE 245
           E  +E +   L     ++ +VGI GMGG+GKTT+A  ++N  S    F+   ++   +  
Sbjct: 2   EDMIEALIEKLLEMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTY 61

Query: 246 SEKCGGLVHLRNQVLSKLLGENFDIG---TPKIPQYIRDRLQRMKVFIVLDDVNKYGQLE 302
           +E       L+  +L +L  ++ D       ++   I++ L R +  +VLDDV +    +
Sbjct: 62  TEF-----RLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWD 116

Query: 303 YFDGGLDRFGPGSRIIVTTRDKTILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCP 361
                      GSR+IVTTR +++  R  GT + +EVE L   E+  LF +  F++   P
Sbjct: 117 KIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPP 176

Query: 362 ----EDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPD-WVNTLNNL-----KRISDSD 411
               E++ K  E      KG PLAL+VLG     KS    W + L  L      R   ++
Sbjct: 177 CPELEEVAK--EIVEK-CKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNE 233

Query: 412 IYGVLKIGYDELSWEEKNLFLDIACFF 438
           +  +L + YD L    K  FL +A F 
Sbjct: 234 VLSILSLSYDNLPMHLKRCFLYLALFP 260

Length = 285

>gnl|CDD|215626 PLN03194, PLN03194, putative disease resistance protein; Provisional

 Score = 63.7 bits (155), Expect = 1e-11
 Identities = 45/176 (25%), Positives = 83/176 (47%), Gaps = 19/176 (10%)

Query: 7   DVFLSFRGEDTRDNFLSHLVVALQEKKIKTFID-EELTRGDQISPALVKAIEESMISVII 65
           DVF++ RG DT+    + L   L    ++ F+D + +  GD++   +  AI    + V +
Sbjct: 28  DVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAV 87

Query: 66  FSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFN 125
           FS  Y  S +CL EL  I++  K+    VIPIF +V PS +R          V  +    
Sbjct: 88  FSPRYCESYFCLHELALIMESKKR----VIPIFCDVKPSQLR----------VVDNG--- 130

Query: 126 KKMPEKVQKWRAVLTEASNLSGWDSNTTRPD-AKLVKEITADILEKLEKLSAAISD 180
               E+++++   L EA    G   ++ + + +++V   +  +++ L +L    S 
Sbjct: 131 TCPDEEIRRFNWALEEAKYTVGLTFDSLKGNWSEVVTMASDAVIKNLIELEEEKSV 186

Length = 187

>gnl|CDD|222311 pfam13676, TIR_2, TIR domain

 Score = 58.4 bits (142), Expect = 1e-10
 Identities = 21/97 (21%), Positives = 46/97 (47%), Gaps = 7/97 (7%)

Query: 8   VFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFS 67
           VF+S+   D    +   L  AL+   I+ ++D ++  G+     + +A+  + + +++ S
Sbjct: 1   VFISYASADRE--WAEWLADALEAAGIRVWLDWDIPPGEDWRDEIEEALRSADVVLVLLS 58

Query: 68  KNYASSKWCLDELVKILKCHKKNIQLVIPIFY-NVDP 103
             Y +S WC  E    L+  K+    +IP+   + + 
Sbjct: 59  PAYLASPWCRAEWGAALERGKR----LIPVRLEDCEL 91

This is a family of bacterial Toll-like receptors. Length = 102

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	709
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN03194	187	putative disease resistance protein; Provisional	100.0
PF01582	141	TIR: TIR domain; InterPro: IPR000157 In Drosophila	99.79
smart00255	140	TIR Toll - interleukin 1 - resistance.	99.77
PRK04841	903	transcriptional regulator MalT; Provisional	99.62
PF13676	102	TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_	99.52
COG3899	849	Predicted ATPase [General function prediction only	99.44
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.36
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.28
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.24
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	99.23
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.22
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	99.21
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.07
COG3903	414	Predicted ATPase [General function prediction only	99.06
PF05729	166	NACHT: NACHT domain	98.99
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.75
PRK13342	413	recombination factor protein RarA; Reviewed	98.68
PRK06893	229	DNA replication initiation factor; Validated	98.66
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.64
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.57
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.53
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.49
PF13173	128	AAA_14: AAA domain	98.49
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.49
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.47
PRK12402	337	replication factor C small subunit 2; Reviewed	98.47
PF14516	331	AAA_35: AAA-like domain	98.46
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.45
PRK04195	482	replication factor C large subunit; Provisional	98.44
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.44
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.44
KOG3678	832	consensus SARM protein (with sterile alpha and arm	98.43
PTZ00202	550	tuzin; Provisional	98.4
PLN03025	319	replication factor C subunit; Provisional	98.39
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.38
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.37
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.33
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.33
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.33
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.32
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.3
PRK08727	233	hypothetical protein; Validated	98.3
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.29
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.29
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.29
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.28
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.27
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.27
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.23
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.22
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.22
PRK05642	234	DNA replication initiation factor; Validated	98.19
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.19
PRK13341	725	recombination factor protein RarA/unknown domain f	98.18
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.18
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.18
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK09087	226	hypothetical protein; Validated	98.16
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.16
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.15
PRK08084	235	DNA replication initiation factor; Provisional	98.14
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.14
KOG2028	554	consensus ATPase related to the helicase subunit o	98.14
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.12
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.11
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.09
PRK03992	389	proteasome-activating nucleotidase; Provisional	98.08
PRK00149	450	dnaA chromosomal replication initiation protein; R	98.08
PRK14088	440	dnaA chromosomal replication initiation protein; P	98.06
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	98.06
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	98.04
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.02
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	98.02
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.02
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	98.01
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.01
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	98.0
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.98
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.98
PF08937	130	DUF1863: MTH538 TIR-like domain (DUF1863); InterPr	97.96
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.95
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.9
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.86
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.86
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.86
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.86
CHL00095	821	clpC Clp protease ATP binding subunit	97.86
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.83
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.82
PHA02544	316	44 clamp loader, small subunit; Provisional	97.81
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.8
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.8
PRK10865	857	protein disaggregation chaperone; Provisional	97.8
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.77
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.77
PRK12422	445	chromosomal replication initiation protein; Provis	97.77
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.77
PRK06620	214	hypothetical protein; Validated	97.76
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.75
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.73
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.73
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.72
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.71
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.71
PF00004	132	AAA: ATPase family associated with various cellula	97.7
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.69
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.67
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.67
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.64
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.63
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.61
PRK08116	268	hypothetical protein; Validated	97.58
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.57
PRK09376	416	rho transcription termination factor Rho; Provisio	97.55
CHL00176	638	ftsH cell division protein; Validated	97.52
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.51
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.51
CHL00181	287	cbbX CbbX; Provisional	97.5
cd01128	249	rho_factor Transcription termination factor rho is	97.48
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	97.42
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.39
TIGR00767	415	rho transcription termination factor Rho. Members	97.38
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.37
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.37
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.37
CHL00195	489	ycf46 Ycf46; Provisional	97.35
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.35
PRK12377	248	putative replication protein; Provisional	97.35
smart00382	148	AAA ATPases associated with a variety of cellular	97.3
PF08357	150	SEFIR: SEFIR domain; InterPro: IPR013568 This doma	97.29
PRK08181	269	transposase; Validated	97.28
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.26
PRK10536	262	hypothetical protein; Provisional	97.21
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	97.2
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.15
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.15
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.14
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.13
PRK06964	342	DNA polymerase III subunit delta'; Validated	97.12
PRK09183	259	transposase/IS protein; Provisional	97.11
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.1
PRK07993	334	DNA polymerase III subunit delta'; Validated	97.1
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	97.08
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.06
PRK06526	254	transposase; Provisional	97.06
PRK07952	244	DNA replication protein DnaC; Validated	97.03
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.99
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.98
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.94
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.93
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.93
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.88
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.85
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.83
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.82
PRK06921	266	hypothetical protein; Provisional	96.82
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.82
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.81
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.8
PRK08939	306	primosomal protein DnaI; Reviewed	96.79
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.78
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.77
CHL00095	821	clpC Clp protease ATP binding subunit	96.76
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	96.74
PRK06835	329	DNA replication protein DnaC; Validated	96.73
PRK10865	857	protein disaggregation chaperone; Provisional	96.73
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.67
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.66
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.63
PRK04132	846	replication factor C small subunit; Provisional	96.61
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.61
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.59
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.58
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.57
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.56
PRK12608	380	transcription termination factor Rho; Provisional	96.56
PRK08118	167	topology modulation protein; Reviewed	96.56
PRK04296	190	thymidine kinase; Provisional	96.51
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.5
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	96.5
PRK00771	437	signal recognition particle protein Srp54; Provisi	96.49
PRK14974	336	cell division protein FtsY; Provisional	96.46
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.43
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.43
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.41
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.41
PRK06067	234	flagellar accessory protein FlaH; Validated	96.41
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.4
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.36
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.32
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.32
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.3
cd01394	218	radB RadB. The archaeal protein radB shares simila	96.3
PRK06696	223	uridine kinase; Validated	96.3
PRK07261	171	topology modulation protein; Provisional	96.29
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.29
PRK07667	193	uridine kinase; Provisional	96.26
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.25
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.25
PHA00729	226	NTP-binding motif containing protein	96.22
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.2
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	96.18
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.17
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.16
PRK11608	326	pspF phage shock protein operon transcriptional ac	96.15
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.13
TIGR00064	272	ftsY signal recognition particle-docking protein F	96.12
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	96.1
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	96.05
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	96.04
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	96.02
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.02
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	96.01
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	95.99
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	95.97
TIGR00959	428	ffh signal recognition particle protein. This mode	95.83
PRK05022	509	anaerobic nitric oxide reductase transcription reg	95.82
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.8
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	95.8
PRK05541	176	adenylylsulfate kinase; Provisional	95.79
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.77
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.73
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.73
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.73
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.72
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	95.68
PRK10867	433	signal recognition particle protein; Provisional	95.68
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.65
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.64
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.64
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.59
PRK15455	644	PrkA family serine protein kinase; Provisional	95.55
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	95.51
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	95.49
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.48
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.48
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.47
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.44
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	95.4
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	95.39
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.37
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.35
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.33
PF10137	125	TIR-like: Predicted nucleotide-binding protein con	95.32
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	95.29
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	95.24
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	95.24
PRK08233	182	hypothetical protein; Provisional	95.22
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.22
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.22
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	95.22
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	95.22
PRK09354	349	recA recombinase A; Provisional	95.22
PRK05480	209	uridine/cytidine kinase; Provisional	95.2
PRK11823	446	DNA repair protein RadA; Provisional	95.19
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	95.18
PRK06762	166	hypothetical protein; Provisional	95.18
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	95.15
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	95.14
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	95.13
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.12
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	95.11
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.11
PTZ00301	210	uridine kinase; Provisional	95.1
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.1
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	95.05
cd03246	173	ABCC_Protease_Secretion This family represents the	95.03
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	95.02
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.97
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	94.96
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.95
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	94.95
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	94.94
PRK13531	498	regulatory ATPase RavA; Provisional	94.93
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	94.93
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.9
KOG1969	877	consensus DNA replication checkpoint protein CHL12	94.88
PRK03839	180	putative kinase; Provisional	94.86
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	94.8
PRK00131	175	aroK shikimate kinase; Reviewed	94.8
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.79
PF07726	131	AAA_3: ATPase family associated with various cellu	94.76
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.75
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.74
CHL00206	2281	ycf2 Ycf2; Provisional	94.74
PRK04040	188	adenylate kinase; Provisional	94.74
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.71
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	94.69
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	94.66
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.62
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	94.6
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	94.58
PRK00889	175	adenylylsulfate kinase; Provisional	94.57
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	94.57
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.57
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.53
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.52
PTZ00494	664	tuzin-like protein; Provisional	94.5
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	94.48
PRK06547	172	hypothetical protein; Provisional	94.47
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.46
TIGR02236	310	recomb_radA DNA repair and recombination protein R	94.45
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.45
PRK00625	173	shikimate kinase; Provisional	94.44
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	94.41
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.41
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	94.39
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.38
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	94.38
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.36
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	94.36
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	94.33
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	94.3
PRK07132	299	DNA polymerase III subunit delta'; Validated	94.29
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	94.29
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	94.28
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	94.27
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	94.26
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	94.25
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.23
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	94.19
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	94.18
PRK13947	171	shikimate kinase; Provisional	94.18
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	94.17
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	94.17
PRK03846	198	adenylylsulfate kinase; Provisional	94.17
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	94.14
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	94.13
KOG0736	953	consensus Peroxisome assembly factor 2 containing	94.1
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	94.07
TIGR03600	421	phage_DnaB phage replicative helicase, DnaB family	94.07
PRK05439	311	pantothenate kinase; Provisional	94.05
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	94.03
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	94.02
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	93.99
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	93.99
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	93.97
PTZ00088	229	adenylate kinase 1; Provisional	93.97
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	93.97
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	93.96
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	93.96
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	93.96
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	93.95
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	93.92
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	93.9
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	93.89
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	93.86
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	93.85
cd03215	182	ABC_Carb_Monos_II This family represents domain II	93.85
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.84
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	93.84
PRK10416	318	signal recognition particle-docking protein FtsY;	93.82
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	93.81
PRK06217	183	hypothetical protein; Validated	93.81
PRK14738	206	gmk guanylate kinase; Provisional	93.8
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.79
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	93.78
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	93.76
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	93.75
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	93.74
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.73
PRK15115	444	response regulator GlrR; Provisional	93.7
PRK05973	237	replicative DNA helicase; Provisional	93.69
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	93.68
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.68
PRK09435	332	membrane ATPase/protein kinase; Provisional	93.67
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	93.66
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	93.66
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	93.64
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	93.62
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	93.6
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	93.57
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.56
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	93.56
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	93.54
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	93.53
PRK04328	249	hypothetical protein; Provisional	93.52
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.48
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	93.44
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	93.43
PF06068	398	TIP49: TIP49 C-terminus; InterPro: IPR010339 This	93.41
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	93.4
PRK08533	230	flagellar accessory protein FlaH; Reviewed	93.39
COG4618	580	ArpD ABC-type protease/lipase transport system, AT	93.37
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.36
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	93.36
PRK12339	197	2-phosphoglycerate kinase; Provisional	93.35
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	93.34
PRK13948	182	shikimate kinase; Provisional	93.28
PRK13949	169	shikimate kinase; Provisional	93.27
PRK13765	637	ATP-dependent protease Lon; Provisional	93.25
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	93.24
COG0714	329	MoxR-like ATPases [General function prediction onl	93.2
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	93.2
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	93.19
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	93.18
PHA02244	383	ATPase-like protein	93.18
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	93.17
COG3910	233	Predicted ATPase [General function prediction only	93.15
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.14
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	93.14
PRK00409	782	recombination and DNA strand exchange inhibitor pr	93.13
PRK05537	568	bifunctional sulfate adenylyltransferase subunit 1	93.12
PRK15453	290	phosphoribulokinase; Provisional	93.11
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	93.11
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	93.1
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	93.08
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	93.08
PF00154	322	RecA: recA bacterial DNA recombination protein; In	93.07
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	93.02
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	93.02
PRK13975	196	thymidylate kinase; Provisional	92.99
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	92.99
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	92.99
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	92.98
PRK14530	215	adenylate kinase; Provisional	92.97
PRK00300	205	gmk guanylate kinase; Provisional	92.96
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	92.92
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	92.92
PF13245	76	AAA_19: Part of AAA domain	92.91
PRK14737	186	gmk guanylate kinase; Provisional	92.89
PRK10923	469	glnG nitrogen regulation protein NR(I); Provisiona	92.89
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	92.88
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	92.88
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	92.88
COG1224	450	TIP49 DNA helicase TIP49, TBP-interacting protein	92.86
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	92.84
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	92.82
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	92.81
PRK13946	184	shikimate kinase; Provisional	92.81
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	92.79
PRK05917	290	DNA polymerase III subunit delta'; Validated	92.79
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	92.74
PF06414	199	Zeta_toxin: Zeta toxin; InterPro: IPR010488 This e	92.73
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	92.71
PRK12678	672	transcription termination factor Rho; Provisional	92.7
PRK14527	191	adenylate kinase; Provisional	92.66
TIGR01193	708	bacteriocin_ABC ABC-type bacteriocin transporter.	92.65
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	92.64
KOG3928	461	consensus Mitochondrial ribosome small subunit com	92.6
PRK14493	274	putative bifunctional molybdopterin-guanine dinucl	92.6
TIGR02533	486	type_II_gspE general secretory pathway protein E.	92.59
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	92.58
PRK04301	317	radA DNA repair and recombination protein RadA; Va	92.56
PRK14529	223	adenylate kinase; Provisional	92.56
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	92.56
PF13086	236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	92.54
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	92.53
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	92.52
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	92.52
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	92.47
PRK13768	253	GTPase; Provisional	92.44
PRK04182	180	cytidylate kinase; Provisional	92.43
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	92.42
PRK05057	172	aroK shikimate kinase I; Reviewed	92.38
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	92.37
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	92.36
PLN02200	234	adenylate kinase family protein	92.36
TIGR02173	171	cyt_kin_arch cytidylate kinase, putative. Proteins	92.36
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	92.36
PF02374	305	ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_	92.36
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	92.34
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	92.32
COG0488	530	Uup ATPase components of ABC transporters with dup	92.31
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	92.28
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	92.26
cd03284	216	ABC_MutS1 MutS1 homolog in eukaryotes. The MutS pr	92.25
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.19
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	92.18
cd03289	275	ABCC_CFTR2 The CFTR subfamily domain 2. The cystic	92.17
) 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	92.12
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	92.09
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	92.07
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	92.07
TIGR01287	275	nifH nitrogenase iron protein. This model describe	92.06
PRK09519	790	recA DNA recombination protein RecA; Reviewed	92.05
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	92.05
smart00072	184	GuKc Guanylate kinase homologues. Active enzymes c	92.04
PRK14532	188	adenylate kinase; Provisional	92.04
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	92.03
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	92.02
PLN02318	656	phosphoribulokinase/uridine kinase	92.01
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	92.01
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	92.0
PLN02348	395	phosphoribulokinase	91.99
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	91.99
PRK03731	171	aroL shikimate kinase II; Reviewed	91.98
TIGR00665	434	DnaB replicative DNA helicase. This model describe	91.95
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	91.92
PRK06761	282	hypothetical protein; Provisional	91.91
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	91.85
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	91.85
PRK14531	183	adenylate kinase; Provisional	91.84
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	91.84
PRK07276	290	DNA polymerase III subunit delta'; Validated	91.78
PHA02530	300	pseT polynucleotide kinase; Provisional	91.78
COG0488	530	Uup ATPase components of ABC transporters with dup	91.73

>PLN03210 Resistant to P

Probab=100.00  E-value=4.1e-89  Score=837.03  Aligned_cols=528  Identities=39%  Similarity=0.658  Sum_probs=477.3

Q ss_pred             CCCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcCCCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHH
Q 005191            2 ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELV   81 (709)
Q Consensus         2 ~~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~   81 (709)
                      +.++|||||||||+|+|.+|++||+++|.++||.+|+|+++++|+.|.+++.+||++|+++|||||++|++|.||++||+
T Consensus         9 ~~~~~~vf~sfrg~d~r~~f~~hl~~~l~~~~i~~f~d~~~~~g~~~~~~l~~~i~~s~~~ivv~s~~ya~s~wcl~el~   88 (1153)
T PLN03210          9 RNWVYDVFPSFSGEDVRITFLSHFLKELDRKLIIAFKDNEIERSQSLDPELKQAIRDSRIAVVVFSKNYASSSWCLNELL   88 (1153)
T ss_pred             CCCCCcEEeeCCCcccccCHHHHHHHHHHHCCCeEEccCCccCCCcccHHHHHHHHhCeEEEEEecCCcccchHHHHHHH
Confidence            46789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhCCceeEeEEeecCCCcccccCCchhhhhhhhhhhhccchhHHHHHHHHHHHhhhccCCCCCCCCcchhhhHH
Q 005191           82 KILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVK  161 (709)
Q Consensus        82 ~~~~~~~~~~~~vlPvf~~v~p~~vr~~~g~~~~~~~~~~~~~~~~~~~~v~~w~~aL~~v~~~~g~~~~~~~~e~~~i~  161 (709)
                      +|++|+++.++.|+||||+|+|++||+|+|.|+++|.+++.+...   +++++||+||++++++.||++..+.+|+++|+
T Consensus        89 ~i~~~~~~~~~~v~pvfy~v~p~~v~~~~g~f~~~f~~~~~~~~~---~~~~~w~~al~~~~~~~g~~~~~~~~E~~~i~  165 (1153)
T PLN03210         89 EIVRCKEELGQLVIPVFYGLDPSHVRKQTGDFGEAFEKTCQNKTE---DEKIQWKQALTDVANILGYHSQNWPNEAKMIE  165 (1153)
T ss_pred             HHHHhhhhcCceEEEEEecccHHHHhhccchHHHHHHHHhcccch---hHHHHHHHHHHHHhCcCceecCCCCCHHHHHH
Confidence            999999999999999999999999999999999999998876554   78999999999999999999998899999999


Q ss_pred             HHHHHHHhhhhcccCCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEee
Q 005191          162 EITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMAN  241 (709)
Q Consensus       162 ~i~~~i~~~l~~~~~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~  241 (709)
                      +|+.+|.+++..  .++...+.+|||+.+++++..+|..+.+++++|+|+||||+||||||+++|+++..+|+..+|+..
T Consensus       166 ~Iv~~v~~~l~~--~~~~~~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~  243 (1153)
T PLN03210        166 EIANDVLGKLNL--TPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDR  243 (1153)
T ss_pred             HHHHHHHHhhcc--ccCcccccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeec
Confidence            999999999987  677788999999999999999998777789999999999999999999999999999999988864


Q ss_pred             e--cccc---c-----ccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCC
Q 005191          242 V--REES---E-----KCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRF  311 (709)
Q Consensus       242 ~--~~~~---~-----~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~  311 (709)
                      .  ....   .     .......++.+++..+.... ... ......+++.+.++|+||||||||+..+|+.+.....++
T Consensus       244 ~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~-~~~-~~~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~  321 (1153)
T PLN03210        244 AFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKK-DIK-IYHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWF  321 (1153)
T ss_pred             cccccchhhcccccccccchhHHHHHHHHHHHhCCC-Ccc-cCCHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccC
Confidence            2  1110   0     00112345566666653221 111 112356888899999999999999999999999888888


Q ss_pred             CCCeEEEEEcCchhhhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcC
Q 005191          312 GPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHR  391 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~  391 (709)
                      ++||+||||||+..++..++..++|+++.|+.++|++||+++||+...+++.+.+++.+|+++|+|+||||+++|++|++
T Consensus       322 ~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~  401 (1153)
T PLN03210        322 GSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRG  401 (1153)
T ss_pred             CCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcC
Confidence            99999999999999998777788999999999999999999999887778888999999999999999999999999999


Q ss_pred             CChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCH-HHHHHHHhccccccCcchhHHHHHHhcCCchHHHHHHHHHhCCCe
Q 005191          392 KSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSW-EEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLI  470 (709)
Q Consensus       392 ~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~-~~k~~fl~lA~Fp~~~~~~~l~~l~~~~g~~~~~~l~~L~~rsLI  470 (709)
                      ++..+|+..+++++...+.++..+|+.||+.|++ .+|.||+++|||+.+.+.+.+..++...++.++..++.|+++|||
T Consensus       402 k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi  481 (1153)
T PLN03210        402 RDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLI  481 (1153)
T ss_pred             CCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCE
Confidence            9999999999999988888999999999999986 599999999999999999888888888888888899999999999


Q ss_pred             EEeCCEEEEcHHHHHHHHHHHhhhcccCCCceecccchhhHHHHHhcCCCCCcccEEEeecCCCccc
Q 005191          471 KISYNKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGF  537 (709)
Q Consensus       471 ~~~~~~~~mHdlvr~~a~~~~~~e~~~~~~~~~rl~~~~~~~~~L~~~~~~~~v~~i~ld~~~~~~~  537 (709)
                      +...+++.|||++|+||++++++++ ..|++|+|+|.+.++++++.+++++..+++|++|++.+..+
T Consensus       482 ~~~~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~  547 (1153)
T PLN03210        482 HVREDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDEL  547 (1153)
T ss_pred             EEcCCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCcccee
Confidence            9998999999999999999999987 67999999999999999999999999999999998877643

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.3e-49  Score=459.97  Aligned_cols=413  Identities=22%  Similarity=0.258  Sum_probs=317.4

Q ss_pred             cccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH---hhhcccceEEEeeecccccccCCHHHHHHHHHH
Q 005191          185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ---FSQKFEGKYFMANVREESEKCGGLVHLRNQVLS  261 (709)
Q Consensus       185 vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~---~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~  261 (709)
                      ||.+..++.+.+.|..++.  .+++|+||||+||||||++++++   +..+|+..+|+.    +++. +....++.+++.
T Consensus       161 VG~e~~~~kl~~~L~~d~~--~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~----VSk~-f~~~~iq~~Il~  233 (889)
T KOG4658|consen  161 VGLETMLEKLWNRLMEDDV--GIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKE-FTTRKIQQTILE  233 (889)
T ss_pred             ccHHHHHHHHHHHhccCCC--CEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----Eccc-ccHHhHHHHHHH
Confidence            9999999999999986543  89999999999999999999995   567899999998    3444 888999999999


Q ss_pred             HhcCCCCCCCC---CChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhh-cCcceEEE
Q 005191          262 KLLGENFDIGT---PKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILER-YGTHRIYE  337 (709)
Q Consensus       262 ~l~~~~~~~~~---~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~-~~~~~~~~  337 (709)
                      .++........   .+....+.+.|.++|+||||||||+..+|+.+..+++...+||+|++|||+..|+.. ++....++
T Consensus       234 ~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~  313 (889)
T KOG4658|consen  234 RLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIE  313 (889)
T ss_pred             HhccCCcccchhhHHHHHHHHHHHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCcccc
Confidence            88553333222   237888999999999999999999999999999999988889999999999999998 77788999


Q ss_pred             ecCCChHHHHHHhhhcccccC-CCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCC-ChhhHHHHHHHhhcC-------C
Q 005191          338 VEGLNCNEALRLFCSCAFKEN-HCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRK-SKPDWVNTLNNLKRI-------S  408 (709)
Q Consensus       338 L~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~-~~~ew~~~L~~L~~~-------~  408 (709)
                      ++.|+.+|||.||++.+|... ...+..++++++++++|+|+|||++++|+.|+.+ +..+|+.+.+.+...       .
T Consensus       314 v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~  393 (889)
T KOG4658|consen  314 VECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGM  393 (889)
T ss_pred             ccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCch
Confidence            999999999999999998763 3335588999999999999999999999999986 567999999987654       1


Q ss_pred             CCcHHhHHHHhhcCCCHHHHHHHHhccccccCc--chhHHHHHHhcCCch------------HHHHHHHHHhCCCeEEeC
Q 005191          409 DSDIYGVLKIGYDELSWEEKNLFLDIACFFNGD--DREHVMWILNDDYYS------------VQYGLNVLVNKSLIKISY  474 (709)
Q Consensus       409 ~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~--~~~~l~~l~~~~g~~------------~~~~l~~L~~rsLI~~~~  474 (709)
                      .+.+..++..||+.||++.|.||+|||+||+++  +.+.++.+|+++|+.            +..++.+|++++|+....
T Consensus       394 ~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~  473 (889)
T KOG4658|consen  394 EESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEER  473 (889)
T ss_pred             hhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcc
Confidence            356889999999999999999999999999997  889999999999954            567999999999999874


Q ss_pred             -----CEEEEcHHHHHHHHHHHhhhcccCCCceecccchhhHHHHHhcCCCCCcccEEEeecCCCccc-cccc--ccccc
Q 005191          475 -----NKLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGF-DHFC--QLVGN  546 (709)
Q Consensus       475 -----~~~~mHdlvr~~a~~~~~~e~~~~~~~~~rl~~~~~~~~~L~~~~~~~~v~~i~ld~~~~~~~-~~~~--~~~~~  546 (709)
                           .+|.|||+||++|..++.+............  .....+ ..+......++.+++-....... ....  ++...
T Consensus       474 ~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~--~~~~~~-~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tL  550 (889)
T KOG4658|consen  474 DEGRKETVKMHDVVREMALWIASDFGKQEENQIVSD--GVGLSE-IPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTL  550 (889)
T ss_pred             cccceeEEEeeHHHHHHHHHHhccccccccceEEEC--CcCccc-cccccchhheeEEEEeccchhhccCCCCCCccceE
Confidence                 6799999999999999993321111100000  000000 11112233444444222111000 0000  00000


Q ss_pred             cc-cc------CcceeecccCcccccCCCCcccccccccCCCcCccCCccCCccccccccccceeeeeeeeeE
Q 005191          547 VC-VN------SNHVILGFYPCWNIGLSDGATVSFDFFIIPYQLVIGKGGGNKTNDFRAAAADVIQVRVAATV  612 (709)
Q Consensus       547 ~~-~~------~~~~~L~~~~~~~~~~l~~~~l~~~i~~LP~~~~Ig~L~~LetLDlr~T~v~~~~~~v~~~~  612 (709)
                      +. .+      -...++...+.++++.+.++.   +..+||+  +||+|.|||+||+.+|.|..+|..+....
T Consensus       551 ll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~---~l~~LP~--~I~~Li~LryL~L~~t~I~~LP~~l~~Lk  618 (889)
T KOG4658|consen  551 LLQRNSDWLLEISGEFFRSLPLLRVLDLSGNS---SLSKLPS--SIGELVHLRYLDLSDTGISHLPSGLGNLK  618 (889)
T ss_pred             EEeecchhhhhcCHHHHhhCcceEEEECCCCC---ccCcCCh--HHhhhhhhhcccccCCCccccchHHHHHH
Confidence            00 00      001113345556666666644   6789999  99999999999999999999998887654

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=100.00  E-value=1.3e-37  Score=327.93  Aligned_cols=266  Identities=30%  Similarity=0.488  Sum_probs=211.6

Q ss_pred             cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH--hhhcccceEEEeeecccccccCCHHHHHHHHHHHhc
Q 005191          187 LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ--FSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL  264 (709)
Q Consensus       187 R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~--~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~  264 (709)
                      ||.++++|.+.|...+++.++|+|+||||+||||||.+++++  +..+|+.++|+.....     .....+...++..+.
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~-----~~~~~~~~~i~~~l~   75 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKN-----PSLEQLLEQILRQLG   75 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES------SCCHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccc-----ccccccccccccccc
Confidence            789999999999976678999999999999999999999998  7889998888873322     444788888999986


Q ss_pred             CCCCCC-C--CCC-hhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCc-ceEEEec
Q 005191          265 GENFDI-G--TPK-IPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGT-HRIYEVE  339 (709)
Q Consensus       265 ~~~~~~-~--~~~-~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~-~~~~~L~  339 (709)
                      ...... .  +.+ ....+.+.|.++++||||||||+...|+.+...++....|++||||||+..++..+.. ...++++
T Consensus        76 ~~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~  155 (287)
T PF00931_consen   76 EPDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELE  155 (287)
T ss_dssp             CC-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECS
T ss_pred             ccccccccccccccccccchhhhccccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccc
Confidence            654332 1  112 7788999999999999999999999998888877777789999999999988876654 6789999


Q ss_pred             CCChHHHHHHhhhcccccC-CCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCC-ChhhHHHHHHHhhcCC------CCc
Q 005191          340 GLNCNEALRLFCSCAFKEN-HCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRK-SKPDWVNTLNNLKRIS------DSD  411 (709)
Q Consensus       340 ~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~-~~~ew~~~L~~L~~~~------~~~  411 (709)
                      +|+.+||++||.+.++... ...+...+.+++|+++|+|+||||+++|++|+.+ +..+|...++++....      ...
T Consensus       156 ~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~  235 (287)
T PF00931_consen  156 PLSEEEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRS  235 (287)
T ss_dssp             S--HHHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            9999999999999997655 3445567789999999999999999999999553 6789999998865433      356


Q ss_pred             HHhHHHHhhcCCCHHHHHHHHhccccccCc--chhHHHHHHhcCCchH
Q 005191          412 IYGVLKIGYDELSWEEKNLFLDIACFFNGD--DREHVMWILNDDYYSV  457 (709)
Q Consensus       412 i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~--~~~~l~~l~~~~g~~~  457 (709)
                      +..++..||+.||++.|.||++||+||.++  +.+.++.+|.++|++.
T Consensus       236 ~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~  283 (287)
T PF00931_consen  236 VFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFIS  283 (287)
T ss_dssp             HHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC
T ss_pred             ccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCc
Confidence            999999999999999999999999999986  7999999999998763

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

>PLN03194 putative disease resistance protein; Provisional

Probab=100.00  E-value=1.8e-37  Score=291.95  Aligned_cols=153  Identities=27%  Similarity=0.486  Sum_probs=140.6

Q ss_pred             CCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELV   81 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~   81 (709)
                      +.+|||||||+|+|++.+|++||+++|+++||+||+|+ ++++|+.|.+.|.+||++|+++|+|||++|++|+||++||.
T Consensus        24 ~~~yDVFISFrG~DtR~~FvshL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~  103 (187)
T PLN03194         24 AKPCDVFINHRGIDTKRTIATLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELA  103 (187)
T ss_pred             CCCCcEEEeCCCccccccHHHHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHH
Confidence            57899999999999999999999999999999999999 89999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhCCceeEeEEeecCCCccccc-CCchhhhhhhhhhhhccchhHHHHHHHHHHHhhhccCCCCCCC-Ccchhhh
Q 005191           82 KILKCHKKNIQLVIPIFYNVDPSVVRNQ-TGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNT-TRPDAKL  159 (709)
Q Consensus        82 ~~~~~~~~~~~~vlPvf~~v~p~~vr~~-~g~~~~~~~~~~~~~~~~~~~~v~~w~~aL~~v~~~~g~~~~~-~~~e~~~  159 (709)
                      +|+++.    +.|+||||+|+|++||+| .|.+           .   .+++++||+||.+++++.||++.. .++|+++
T Consensus       104 ~I~e~~----~~ViPIFY~VdPsdVr~q~~~~~-----------~---~e~v~~Wr~AL~~va~l~G~~~~~~~~~e~e~  165 (187)
T PLN03194        104 LIMESK----KRVIPIFCDVKPSQLRVVDNGTC-----------P---DEEIRRFNWALEEAKYTVGLTFDSLKGNWSEV  165 (187)
T ss_pred             HHHHcC----CEEEEEEecCCHHHhhccccCCC-----------C---HHHHHHHHHHHHHHhccccccCCCCCCCHHHH
Confidence            999864    479999999999999997 4431           1   278999999999999999998763 5789999


Q ss_pred             HHHHHHHHHhhhhc
Q 005191          160 VKEITADILEKLEK  173 (709)
Q Consensus       160 i~~i~~~i~~~l~~  173 (709)
                      |++|+..|.++|..
T Consensus       166 i~~iv~~v~k~l~~  179 (187)
T PLN03194        166 VTMASDAVIKNLIE  179 (187)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999998765

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

Probab=99.79  E-value=4.7e-20  Score=172.91  Aligned_cols=133  Identities=34%  Similarity=0.598  Sum_probs=113.2

Q ss_pred             EEecCCcccccCchHHHHHHHHHhC--CCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHHHHH
Q 005191            8 VFLSFRGEDTRDNFLSHLVVALQEK--KIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKIL   84 (709)
Q Consensus         8 vFiS~~~~D~~~~f~~~L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~~~~   84 (709)
                      |||||++.|++..|+++|..+|++.  |+++|+++ |+.+|..+.++|.++|++|+++|+|+|++|++|+||+.|+..++
T Consensus         1 vfisy~~~~d~~~~~~~L~~~Le~~~~g~~~c~~~rD~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~s~wc~~el~~a~   80 (141)
T PF01582_consen    1 VFISYSGKDDREWFVSHLLPELEERPYGYKLCLDERDFLPGESILDNIQEAIERSRRTIVVLSRNYLSSEWCLFELQEAL   80 (141)
T ss_dssp             EEEEE-GHHGHHHHHHCHHHHHHCTSSTS-EEEHHHCTSSSSCHHHHHHHHHHTEEEEEEEESHHHHHHTHHHHHHHHHH
T ss_pred             cEEEeCCCCcHHHHHHHHHHHHHhCCCCeEEEEechhhcccccccchhhHhhhhceeeEEEeecccccccchhhhhhhhh
Confidence            8999999444566999999999999  99999999 99999999999999999999999999999999999999999999


Q ss_pred             HhhhhCC--ceeEeEEeecCCCccc-ccCCchhhhhhhhhhhhccc-hhHHHHHHHHHHH
Q 005191           85 KCHKKNI--QLVIPIFYNVDPSVVR-NQTGSFKDAFVKHDKQFNKK-MPEKVQKWRAVLT  140 (709)
Q Consensus        85 ~~~~~~~--~~vlPvf~~v~p~~vr-~~~g~~~~~~~~~~~~~~~~-~~~~v~~w~~aL~  140 (709)
                      ++....+  ..|+|+||++.+++++ .+.+.+...+..+..-...+ ...+...|++++.
T Consensus        81 ~~~~~~~~~~~Il~v~~~v~~~~~~~~~~~~~~~~~~~~~~w~~~~~~~~~~~fW~~l~~  140 (141)
T PF01582_consen   81 ERLLEEGRDKLILPVFYDVSPSDVRPDQSLRFLLRFLTYLRWPDDDSREDRSWFWKKLRY  140 (141)
T ss_dssp             HHHHCSTCTTEEEEESSSS-CHHCHTHHHHHHHHHCTHCEETSSSGGGGGHHHHHHHHHH
T ss_pred             hhccccccccceeeEeccCChhhcChhhhHHHHHHhhhheeCCCCCCccHHHHHHHHHhc
Confidence            9886654  8999999999999999 68888888887766555442 1257889988764

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

>smart00255 TIR Toll - interleukin 1 - resistance

Probab=99.77  E-value=1.6e-18  Score=162.22  Aligned_cols=136  Identities=40%  Similarity=0.690  Sum_probs=113.6

Q ss_pred             cceEEecCCc-ccccCchHHHHHHHHHhCCCceEEcCCCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHHHH
Q 005191            5 KYDVFLSFRG-EDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKI   83 (709)
Q Consensus         5 ~ydvFiS~~~-~D~~~~f~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~~~   83 (709)
                      .|||||||++ ++....|+.+|...|...|+.+|.|+....|... .+|.++|++|+++|+|+||+|+.|.||..|+..+
T Consensus         1 ~~dvFISys~~~~~~~~~v~~L~~~l~~~~~~v~~d~~~~~~~~~-~~i~~~i~~s~~~i~vlS~~~~~S~w~~~E~~~a   79 (140)
T smart00255        1 EYDVFISYSGKEDVRNEFLSHLLEKLRGYGLCVFIDDFEPGGGDL-EEIDEAIEKSRIAIVVLSPNYAESEWCLDELVAA   79 (140)
T ss_pred             CCeEEEECCCCHHHHHHHHHHHHHHhhcCCcEEEecCcccccchH-HHHHHHHHHCcEEEEEECcccccChhHHHHHHHH
Confidence            4999999999 4555889999999999999999999844333333 4999999999999999999999999999999999


Q ss_pred             HHhhhh-CCceeEeEEeecCCCcccccCCchhhhhhhhhhhhccchhHHHHHHHHHHHhhh
Q 005191           84 LKCHKK-NIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEAS  143 (709)
Q Consensus        84 ~~~~~~-~~~~vlPvf~~v~p~~vr~~~g~~~~~~~~~~~~~~~~~~~~v~~w~~aL~~v~  143 (709)
                      ..+... ...+||||+++..|+.+.++.+.+...+......+..+. .+ ..|+..+..+.
T Consensus        80 ~~~~~~~~~~~iIPI~~~~~~~~~~~~~~~l~~~~~~~~~~w~~~~-~~-~fW~~~~~~l~  138 (140)
T smart00255       80 LENALEEGGLRVIPIFYEVIPSDVRKQPGKFRKVLKKNYLKWPEDE-KE-RFWKKALYAVP  138 (140)
T ss_pred             HHHHHHcCCCeEEEEEEecChHHHHhcccHHHHHHHHHHhhcCCch-hH-HHHHHHHHHhc
Confidence            987754 567999999998898899999999999888766666532 11 68998877654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.62  E-value=5.2e-14  Score=171.69  Aligned_cols=297  Identities=15%  Similarity=0.133  Sum_probs=188.7

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      .+|..+..+|-|..-++.|..     ....+++.|+|++|.||||++.++.++    ++.+.|+. +....   .+...+
T Consensus         8 ~~p~~~~~~~~R~rl~~~l~~-----~~~~~~~~v~apaG~GKTtl~~~~~~~----~~~~~w~~-l~~~d---~~~~~f   74 (903)
T PRK04841          8 SRPVRLHNTVVRERLLAKLSG-----ANNYRLVLVTSPAGYGKTTLISQWAAG----KNNLGWYS-LDESD---NQPERF   74 (903)
T ss_pred             CCCCCccccCcchHHHHHHhc-----ccCCCeEEEECCCCCCHHHHHHHHHHh----CCCeEEEe-cCccc---CCHHHH
Confidence            356667789999876665543     235789999999999999999998864    23577885 32221   334445


Q ss_pred             HHHHHHHhcCCCCC-----------CCCCC---hhHHHHHHHc--cCceEEEecCCCChh--hh-hhhhcCCCCCCCCeE
Q 005191          256 RNQVLSKLLGENFD-----------IGTPK---IPQYIRDRLQ--RMKVFIVLDDVNKYG--QL-EYFDGGLDRFGPGSR  316 (709)
Q Consensus       256 ~~~ll~~l~~~~~~-----------~~~~~---~~~~l~~~L~--~kr~LLVLDdv~~~~--~~-~~l~~~l~~~~~gsr  316 (709)
                      ...++..+......           .....   ....+...+.  +.+++|||||+...+  .. +.+...+....++.+
T Consensus        75 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~  154 (903)
T PRK04841         75 ASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLT  154 (903)
T ss_pred             HHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeE
Confidence            55555555211110           00011   1222223332  579999999995432  21 222222222356778


Q ss_pred             EEEEcCchhhhh--hc-CcceEEEec----CCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          317 IIVTTRDKTILE--RY-GTHRIYEVE----GLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       317 IIvTTR~~~v~~--~~-~~~~~~~L~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      +|||||......  .. -.....++.    +|+.+|+.+||.......     ...+.+.+|.+.|+|+|+++..++..+
T Consensus       155 lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~-----~~~~~~~~l~~~t~Gwp~~l~l~~~~~  229 (903)
T PRK04841        155 LVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSP-----IEAAESSRLCDDVEGWATALQLIALSA  229 (903)
T ss_pred             EEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCC-----CCHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            989999852221  11 012344555    899999999997765221     123457899999999999999998877


Q ss_pred             cCCChhhHHHHHHHhhcCCCCcHHhHHHHh-hcCCCHHHHHHHHhccccccCcchhHHHHHHhcCCchHHHHHHHHHhCC
Q 005191          390 HRKSKPDWVNTLNNLKRISDSDIYGVLKIG-YDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKS  468 (709)
Q Consensus       390 ~~~~~~ew~~~L~~L~~~~~~~i~~~L~~S-y~~L~~~~k~~fl~lA~Fp~~~~~~~l~~l~~~~g~~~~~~l~~L~~rs  468 (709)
                      ...... .......+.......+...+... ++.||++.+.++..+|+++ .++.+.+..+...  ..+...++.|.+.+
T Consensus       230 ~~~~~~-~~~~~~~~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~~--~~~~~~L~~l~~~~  305 (903)
T PRK04841        230 RQNNSS-LHDSARRLAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTGE--ENGQMRLEELERQG  305 (903)
T ss_pred             hhCCCc-hhhhhHhhcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcCC--CcHHHHHHHHHHCC
Confidence            543211 11111222221234566655444 8999999999999999987 6676666666543  24678899999999


Q ss_pred             CeEE-e---CCEEEEcHHHHHHHHHHHhhh
Q 005191          469 LIKI-S---YNKLQMHDLLQEMGREIVCQE  494 (709)
Q Consensus       469 LI~~-~---~~~~~mHdlvr~~a~~~~~~e  494 (709)
                      ++.. .   ...|++|++++++++.....+
T Consensus       306 l~~~~~~~~~~~yr~H~L~r~~l~~~l~~~  335 (903)
T PRK04841        306 LFIQRMDDSGEWFRYHPLFASFLRHRCQWE  335 (903)
T ss_pred             CeeEeecCCCCEEehhHHHHHHHHHHHHhc
Confidence            9653 2   236999999999999887544

>PF13676 TIR_2: TIR domain; PDB: 3H16_B 3UB4_A 2Y92_A 3UB3_A 3UB2_A

Probab=99.52  E-value=3.6e-15  Score=131.58  Aligned_cols=87  Identities=31%  Similarity=0.569  Sum_probs=75.3

Q ss_pred             EEecCCcccccCchHHHHHHHHHhCCCceEEcCCCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHHHHHHhh
Q 005191            8 VFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCH   87 (709)
Q Consensus         8 vFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~~~~~~~   87 (709)
                      |||||+++|  ..++.+|.+.|+..|+++|+|.++.+|+.+.+.|.++|++|+..|+++|++|..|+||..|+..+.   
T Consensus         1 VFIS~~~~D--~~~a~~l~~~L~~~g~~v~~d~~~~~g~~~~~~i~~~i~~s~~~i~~~S~~~~~s~~~~~E~~~a~---   75 (102)
T PF13676_consen    1 VFISYSSED--REFAERLAERLESAGIRVFLDRDIPPGEDWREEIERAIERSDCVIVLLSPNYLKSPWCRFELGAAW---   75 (102)
T ss_dssp             EEEEEEGGG--CCCHHHHHHHHHHTT--EE-GGEE-TTS-HHCCCHHCCTTEEEEEEEEEHHHHCTHHHHHHHHHHH---
T ss_pred             eEEEecCCc--HHHHHHHHHHHhhcCCEEEEEEeCCCCCCHHHHHHHHHHhCCEEEEEECcccccChHHHHHHHHHH---
Confidence            899999999  679999999999999999999989999999999999999999999999999999999999998883   


Q ss_pred             hhCCceeEeEEee
Q 005191           88 KKNIQLVIPIFYN  100 (709)
Q Consensus        88 ~~~~~~vlPvf~~  100 (709)
                       ..++.|+||..+
T Consensus        76 -~~~~~iipv~~~   87 (102)
T PF13676_consen   76 -KRGKPIIPVRLD   87 (102)
T ss_dssp             -CTSESEEEEECS
T ss_pred             -HCCCEEEEEEEC
Confidence             244589999744

>COG3899 Predicted ATPase [General function prediction only]

Probab=99.44  E-value=1.5e-12  Score=154.64  Aligned_cols=325  Identities=16%  Similarity=0.177  Sum_probs=200.5

Q ss_pred             CccccchhhhHHHhhhhccC-CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecc-cc--cccCCHHHHHHH
Q 005191          183 GLIGLESHVEQVRSLLAIGL-PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVRE-ES--EKCGGLVHLRNQ  258 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~-~~--~~~~~l~~l~~~  258 (709)
                      .++||+.+++.|...+.... ....++.+.|.+|||||+|+++|...+.+.+  ..++..--. ..  .+...+.+.+++
T Consensus         1 ~l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~--~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           1 PLYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQR--GYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccc--eeeeHhhcccccCCCchHHHHHHHHH
Confidence            37999999999999998643 3478999999999999999999999765551  111110000 00  000112223333


Q ss_pred             HHHHh-------------------cCCCCC--------------------CCCCCh--------hHHHHHHH-ccCceEE
Q 005191          259 VLSKL-------------------LGENFD--------------------IGTPKI--------PQYIRDRL-QRMKVFI  290 (709)
Q Consensus       259 ll~~l-------------------~~~~~~--------------------~~~~~~--------~~~l~~~L-~~kr~LL  290 (709)
                      +..++                   +.....                    .+....        ...+.... +.+|.++
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            33322                   111100                    000000        11111222 3469999


Q ss_pred             EecCC-CChh----hhhhhhcCCC--CC-CCCeEEEEEcCch--hhhhhcCcceEEEecCCChHHHHHHhhhcccccCCC
Q 005191          291 VLDDV-NKYG----QLEYFDGGLD--RF-GPGSRIIVTTRDK--TILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHC  360 (709)
Q Consensus       291 VLDdv-~~~~----~~~~l~~~l~--~~-~~gsrIIvTTR~~--~v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~  360 (709)
                      |+||+ |-+.    -++.++....  .+ .+....+.|.+..  .+.........+.|.||+..+...|.......... 
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~~-  237 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTKL-  237 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCccc-
Confidence            99999 5322    2333333322  00 0111222333332  12222234478999999999999999887743222 


Q ss_pred             ChhhHHHHHHHHHHhcCCchHHHHHhhhhcCC-------ChhhHHHHHHHhhcCC-CCcHHhHHHHhhcCCCHHHHHHHH
Q 005191          361 PEDLLKHSETAAHYAKGNPLALQVLGSSFHRK-------SKPDWVNTLNNLKRIS-DSDIYGVLKIGYDELSWEEKNLFL  432 (709)
Q Consensus       361 ~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~-------~~~ew~~~L~~L~~~~-~~~i~~~L~~Sy~~L~~~~k~~fl  432 (709)
                        ...+....|++++.|+|+.+..+-..+...       +...|..-..++.... .+++.+.+....+.||...|+++.
T Consensus       238 --~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~Vl~  315 (849)
T COG3899         238 --LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREVLK  315 (849)
T ss_pred             --ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHHHH
Confidence              234568899999999999999999988763       2344544444433222 133566799999999999999999


Q ss_pred             hccccccCcchhHHHHHHhcCCchHHHHHHHHHhCCCeEEe---------CCEE---EEcHHHHHHHHHHHhhhcccCCC
Q 005191          433 DIACFFNGDDREHVMWILNDDYYSVQYGLNVLVNKSLIKIS---------YNKL---QMHDLLQEMGREIVCQEFREKPE  500 (709)
Q Consensus       433 ~lA~Fp~~~~~~~l~~l~~~~g~~~~~~l~~L~~rsLI~~~---------~~~~---~mHdlvr~~a~~~~~~e~~~~~~  500 (709)
                      ..||+++.++.+.|..++...+......+......++|.+.         ....   ..|+++|+.+.....+.      
T Consensus       316 ~AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~~~------  389 (849)
T COG3899         316 AAACIGNRFDLDTLAALAEDSPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIPES------  389 (849)
T ss_pred             HHHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHHHHhccCchh------
Confidence            99999999999999999986555555556666666666652         1112   56999999988766554      


Q ss_pred             ceecccchhhHHHHHhcCCC
Q 005191          501 KRSRLWDHKDVCHVLEKNKE  520 (709)
Q Consensus       501 ~~~rl~~~~~~~~~L~~~~~  520 (709)
                        .|...|..+...|..+..
T Consensus       390 --~rq~~H~~i~~lL~~~~~  407 (849)
T COG3899         390 --QRQYLHLRIGQLLEQNIP  407 (849)
T ss_pred             --hHHHHHHHHHHHHHHhCC
Confidence              344567777777766653

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.36  E-value=1.4e-10  Score=127.90  Aligned_cols=284  Identities=15%  Similarity=0.073  Sum_probs=166.4

Q ss_pred             CCCCCCccccchhhhHHHhhhhcc--CCCceEEEEEccCCCchhHHHHHHHHHhhhcccc--eEEEeeecccccccCCHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIG--LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG--KYFMANVREESEKCGGLV  253 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~v~~~~~~~~~~~~l~  253 (709)
                      ...|+.++||++++++|...+...  ......+.|+|++|+|||++++.+++.+....+.  .+++. ....    ....
T Consensus        26 ~~~P~~l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in-~~~~----~~~~  100 (394)
T PRK00411         26 DYVPENLPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN-CQID----RTRY  100 (394)
T ss_pred             CCcCCCCCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE-CCcC----CCHH
Confidence            346788999999999999998542  2345667899999999999999999987665422  23332 2211    3456


Q ss_pred             HHHHHHHHHhcCCCCCCCC---CChhHHHHHHHc--cCceEEEecCCCChh------hhhhhhcCCCCCC-CCeEEEEEc
Q 005191          254 HLRNQVLSKLLGENFDIGT---PKIPQYIRDRLQ--RMKVFIVLDDVNKYG------QLEYFDGGLDRFG-PGSRIIVTT  321 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~---~~~~~~l~~~L~--~kr~LLVLDdv~~~~------~~~~l~~~l~~~~-~gsrIIvTT  321 (709)
                      .+...++.++.........   .+....+.+.+.  +++.+||||+++...      .+..+........ .+..+|.++
T Consensus       101 ~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~~~~~~v~vI~i~  180 (394)
T PRK00411        101 AIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEEYPGARIGVIGIS  180 (394)
T ss_pred             HHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhccCCCeEEEEEEE
Confidence            6777888887542211111   124555666654  356899999997532      3344433222111 133356666


Q ss_pred             CchhhhhhcC-------cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHh----cCCchHHHHHhhhh-
Q 005191          322 RDKTILERYG-------THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYA----KGNPLALQVLGSSF-  389 (709)
Q Consensus       322 R~~~v~~~~~-------~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~----gGlPLAL~~la~~L-  389 (709)
                      ....+.....       ....+.+++++.++..+++..++-....+.....+.++.+++.+    |..+.|+..+-... 
T Consensus       181 ~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~  260 (394)
T PRK00411        181 SDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGL  260 (394)
T ss_pred             CCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            5543322211       12467899999999999998776321111111223344444444    44667776654322 


Q ss_pred             -c---CC---ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccccc----cCcchhHHHH----H---Hh
Q 005191          390 -H---RK---SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFF----NGDDREHVMW----I---LN  451 (709)
Q Consensus       390 -~---~~---~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp----~~~~~~~l~~----l---~~  451 (709)
                       .   +.   +.+.....++.+.       .......+..||.++|.++..++...    .......+..    +   ..
T Consensus       261 ~a~~~~~~~I~~~~v~~a~~~~~-------~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~  333 (394)
T PRK00411        261 IAEREGSRKVTEEDVRKAYEKSE-------IVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELG  333 (394)
T ss_pred             HHHHcCCCCcCHHHHHHHHHHHH-------HHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcC
Confidence             1   11   3445555555431       23455678899999999888776443    2223333322    1   22


Q ss_pred             cCC---chHHHHHHHHHhCCCeEEe
Q 005191          452 DDY---YSVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       452 ~~g---~~~~~~l~~L~~rsLI~~~  473 (709)
                      ...   .....+++.|.+.|||...
T Consensus       334 ~~~~~~~~~~~~l~~L~~~glI~~~  358 (394)
T PRK00411        334 YEPRTHTRFYEYINKLDMLGIINTR  358 (394)
T ss_pred             CCcCcHHHHHHHHHHHHhcCCeEEE
Confidence            111   2245689999999999864

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.28  E-value=1.7e-10  Score=130.49  Aligned_cols=295  Identities=16%  Similarity=0.162  Sum_probs=191.0

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      .+|..+.+.|-|..-++.|.+.     .+.|.+.|..|+|.|||||+.+++. ....-..+.|+.....    ..+...+
T Consensus        13 ~~P~~~~~~v~R~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~-~~~~~~~v~Wlslde~----dndp~rF   82 (894)
T COG2909          13 VRPVRPDNYVVRPRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE-LAADGAAVAWLSLDES----DNDPARF   82 (894)
T ss_pred             CCCCCcccccccHHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH-hcCcccceeEeecCCc----cCCHHHH
Confidence            3455577888888666655542     3589999999999999999999988 4444567888873322    2566778


Q ss_pred             HHHHHHHhcCCCCCCCCC-----------C---hhHHHHHHHc--cCceEEEecCCCC------hhhhhhhhcCCCCCCC
Q 005191          256 RNQVLSKLLGENFDIGTP-----------K---IPQYIRDRLQ--RMKVFIVLDDVNK------YGQLEYFDGGLDRFGP  313 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~-----------~---~~~~l~~~L~--~kr~LLVLDdv~~------~~~~~~l~~~l~~~~~  313 (709)
                      ...++..++.-.+...+.           .   +...+...+.  .++..+||||..-      ...++.+....   .+
T Consensus        83 ~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~---P~  159 (894)
T COG2909          83 LSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHA---PE  159 (894)
T ss_pred             HHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhC---CC
Confidence            888888775333222111           1   2223333333  3689999999842      22445555543   47


Q ss_pred             CeEEEEEcCchhhhhhcC---cceEEEec----CCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          314 GSRIIVTTRDKTILERYG---THRIYEVE----GLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       314 gsrIIvTTR~~~v~~~~~---~~~~~~L~----~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      +..+|+|||...-.....   .+...++.    .++.+|+.++|..+..     .+.....++.+.+.++|-+-|+..++
T Consensus       160 ~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~-----l~Ld~~~~~~L~~~teGW~~al~L~a  234 (894)
T COG2909         160 NLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAFLNDRGS-----LPLDAADLKALYDRTEGWAAALQLIA  234 (894)
T ss_pred             CeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHHHHHcCC-----CCCChHHHHHHHhhcccHHHHHHHHH
Confidence            889999999873222110   11223333    4899999999987651     11223457899999999999999998


Q ss_pred             hhhcCC-ChhhHHHHHHHhhcCCCCcHHh-HHHHhhcCCCHHHHHHHHhccccccCcchhHHHHHHhcCCchHHHHHHHH
Q 005191          387 SSFHRK-SKPDWVNTLNNLKRISDSDIYG-VLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQYGLNVL  464 (709)
Q Consensus       387 ~~L~~~-~~~ew~~~L~~L~~~~~~~i~~-~L~~Sy~~L~~~~k~~fl~lA~Fp~~~~~~~l~~l~~~~g~~~~~~l~~L  464 (709)
                      =.+++. +.+.-...+.   .. .+.+.+ ....-++.||+++|..++.+|+++. ++-+-...+...  ......+++|
T Consensus       235 La~~~~~~~~q~~~~Ls---G~-~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~-f~~eL~~~Ltg~--~ng~amLe~L  307 (894)
T COG2909         235 LALRNNTSAEQSLRGLS---GA-ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSR-FNDELCNALTGE--ENGQAMLEEL  307 (894)
T ss_pred             HHccCCCcHHHHhhhcc---ch-HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHH-hhHHHHHHHhcC--CcHHHHHHHH
Confidence            888732 2222111111   00 111222 3455678999999999999999853 233333333322  2456679999


Q ss_pred             HhCCCeEEe----CCEEEEcHHHHHHHHHHHhhhc
Q 005191          465 VNKSLIKIS----YNKLQMHDLLQEMGREIVCQEF  495 (709)
Q Consensus       465 ~~rsLI~~~----~~~~~mHdlvr~~a~~~~~~e~  495 (709)
                      .+++|+-..    ++.|+.|.+..+|.+.....+.
T Consensus       308 ~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~~~  342 (894)
T COG2909         308 ERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQREL  342 (894)
T ss_pred             HhCCCceeeecCCCceeehhHHHHHHHHhhhcccc
Confidence            999987643    6679999999999998777653

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.24  E-value=2.8e-09  Score=116.36  Aligned_cols=284  Identities=15%  Similarity=0.094  Sum_probs=162.3

Q ss_pred             CCCCCCccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhccc------ceEEEeeeccccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE------GKYFMANVREESEKC  249 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~------~~~~v~~~~~~~~~~  249 (709)
                      ...|+.++||++++++|...|..  .......+.|+|++|+|||++++.+++.+....+      ..+|+. ....    
T Consensus        11 ~~~p~~l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in-~~~~----   85 (365)
T TIGR02928        11 DYVPDRIVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVN-CQIL----   85 (365)
T ss_pred             CCCCCCCCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEE-CCCC----
Confidence            44567899999999999999874  1234567899999999999999999997654322      123333 2211    


Q ss_pred             CCHHHHHHHHHHHhc--CCCCCCCC---CChhHHHHHHHc--cCceEEEecCCCChh-----hhhhhhcC--CCCC-CCC
Q 005191          250 GGLVHLRNQVLSKLL--GENFDIGT---PKIPQYIRDRLQ--RMKVFIVLDDVNKYG-----QLEYFDGG--LDRF-GPG  314 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~--~~~~~~~~---~~~~~~l~~~L~--~kr~LLVLDdv~~~~-----~~~~l~~~--l~~~-~~g  314 (709)
                      .....+...++.++.  +.......   .+....+.+.+.  +++++||||+++...     .+..+...  .... +..
T Consensus        86 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~  165 (365)
T TIGR02928        86 DTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAK  165 (365)
T ss_pred             CCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCe
Confidence            344567777777773  11111111   113344555553  467899999997651     12233222  1111 123


Q ss_pred             eEEEEEcCchhhhhhcC-------cceEEEecCCChHHHHHHhhhccc---ccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          315 SRIIVTTRDKTILERYG-------THRIYEVEGLNCNEALRLFCSCAF---KENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       315 srIIvTTR~~~v~~~~~-------~~~~~~L~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      ..+|.+|..........       ....+.+++++.++..+++..++-   ......+...+.+..++..+.|.|-.+..
T Consensus       166 v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~  245 (365)
T TIGR02928       166 VGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAID  245 (365)
T ss_pred             EEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHH
Confidence            34555554443222111       125689999999999999988763   11122333334455667777898854433


Q ss_pred             Hh-hhh--c---C---CChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhcccccc----CcchhHHHH---
Q 005191          385 LG-SSF--H---R---KSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFN----GDDREHVMW---  448 (709)
Q Consensus       385 la-~~L--~---~---~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~----~~~~~~l~~---  448 (709)
                      +. ...  .   +   -+.+......+.+.       ......++..||.+++.++..++..-.    .+....+..   
T Consensus       246 ~l~~a~~~a~~~~~~~it~~~v~~a~~~~~-------~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~  318 (365)
T TIGR02928       246 LLRVAGEIAEREGAERVTEDHVEKAQEKIE-------KDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYK  318 (365)
T ss_pred             HHHHHHHHHHHcCCCCCCHHHHHHHHHHHH-------HHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHH
Confidence            22 111  1   1   13334444444331       234556778999999888777663321    123333322   


Q ss_pred             -HHhcCC------chHHHHHHHHHhCCCeEEe
Q 005191          449 -ILNDDY------YSVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       449 -l~~~~g------~~~~~~l~~L~~rsLI~~~  473 (709)
                       +....|      ....+++..|...|||...
T Consensus       319 ~~~~~~~~~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       319 EVCEDIGVDPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             HHHHhcCCCCCcHHHHHHHHHHHHhcCCeEEE
Confidence             111112      1255689999999999965

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

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

Probab=99.23  E-value=1.9e-11  Score=124.12  Aligned_cols=196  Identities=20%  Similarity=0.270  Sum_probs=100.8

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH------HH
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL------RN  257 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l------~~  257 (709)
                      |+||+.|+++|.+++..+  ..+.+.|+|+.|+|||+|++.+.+.........+|+.........  .....      ..
T Consensus         1 F~gR~~el~~l~~~l~~~--~~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~--~~~~~~~~~~~~~   76 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG--PSQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNES--SLRSFIEETSLAD   76 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHH--HHHHHHHHHHHHC
T ss_pred             CCCHHHHHHHHHHHHHhh--cCcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhh--HHHHHHHHHHHHH
Confidence            799999999999998753  357899999999999999999999875443344444422221110  11111      11


Q ss_pred             HHHHHh----cCCCC-------CCCCCChhHHHHHHHcc--CceEEEecCCCChh-----------hhhhhhcCCCCCCC
Q 005191          258 QVLSKL----LGENF-------DIGTPKIPQYIRDRLQR--MKVFIVLDDVNKYG-----------QLEYFDGGLDRFGP  313 (709)
Q Consensus       258 ~ll~~l----~~~~~-------~~~~~~~~~~l~~~L~~--kr~LLVLDdv~~~~-----------~~~~l~~~l~~~~~  313 (709)
                      .+...+    .....       ..........+.+.+..  ++++||+||+....           .+..+...... ..
T Consensus        77 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~  155 (234)
T PF01637_consen   77 ELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS-QQ  155 (234)
T ss_dssp             HCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----T
T ss_pred             HHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc-cC
Confidence            111112    11110       00111133333344433  45999999996544           11222222222 23


Q ss_pred             CeEEEEEcCchhhhhh--------cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          314 GSRIIVTTRDKTILER--------YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       314 gsrIIvTTR~~~v~~~--------~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ...+|+++........        .+....+.+++|+.+++.+++....-..... +...+..++|+..+||+|..|..+
T Consensus       156 ~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~-~~~~~~~~~i~~~~gG~P~~l~~~  234 (234)
T PF01637_consen  156 NVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKL-PFSDEDIEEIYSLTGGNPRYLQEL  234 (234)
T ss_dssp             TEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHHH
T ss_pred             CceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcc-cCCHHHHHHHHHHhCCCHHHHhcC
Confidence            3344455444433322        2233459999999999999998865222111 124556799999999999988653

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

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.22  E-value=3.3e-10  Score=120.51  Aligned_cols=263  Identities=16%  Similarity=0.150  Sum_probs=156.3

Q ss_pred             CCccccchhhhHHHhhhhcc---CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIG---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      ..|||+++.+++|..++...   ....+.+.++|++|+|||+||+.+++.+...+.    .......    ..... ...
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~----~~~~~~~----~~~~~-l~~   74 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLK----ITSGPAL----EKPGD-LAA   74 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEE----Eeccchh----cCchh-HHH
Confidence            46999999999999988632   233566889999999999999999997654321    1111000    01111 112


Q ss_pred             HHHHhcCCCC-CCCC-----CChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhc--
Q 005191          259 VLSKLLGENF-DIGT-----PKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERY--  330 (709)
Q Consensus       259 ll~~l~~~~~-~~~~-----~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~--  330 (709)
                      .+..+..... -+++     .+..+.+...+.+.+..+|+++..+..++....      .+.+-|..||+...+....  
T Consensus        75 ~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~~~~~~------~~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        75 ILTNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARSVRLDL------PPFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HHHhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccceeecC------CCeEEEEecCCccccCHHHHh
Confidence            2222211100 0000     012233444444445555555543333332111      2344556677764333321  


Q ss_pred             CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcC------C---ChhhHHHHH
Q 005191          331 GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHR------K---SKPDWVNTL  401 (709)
Q Consensus       331 ~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~------~---~~~ew~~~L  401 (709)
                      .....+.+++++.++..+++.+.+....  .....+.+..|++.|+|.|-.+..++..+..      .   +.+....  
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~--~~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~--  224 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLN--VEIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALK--  224 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhC--CCcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHH--
Confidence            1235679999999999999988774322  1233466789999999999776655554311      0   1111111  


Q ss_pred             HHhhcCCCCcHHhHHHHhhcCCCHHHHHHHH-hccccccC-cchhHHHHHHhcCCchHHHHHH-HHHhCCCeEEe
Q 005191          402 NNLKRISDSDIYGVLKIGYDELSWEEKNLFL-DIACFFNG-DDREHVMWILNDDYYSVQYGLN-VLVNKSLIKIS  473 (709)
Q Consensus       402 ~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl-~lA~Fp~~-~~~~~l~~l~~~~g~~~~~~l~-~L~~rsLI~~~  473 (709)
                                ....+...+..|++..+..+. .++.+..+ ...+.+...+..+...++..++ .|++++||...
T Consensus       225 ----------~l~~l~~~~~~l~~~~~~~L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~  289 (305)
T TIGR00635       225 ----------ALEMLMIDELGLDEIDRKLLSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRT  289 (305)
T ss_pred             ----------HHHHhCCCCCCCCHHHHHHHHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccC
Confidence                      112245668889998888777 44666543 5788899999888888899899 69999999754

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

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=99.21  E-value=2e-10  Score=123.35  Aligned_cols=273  Identities=16%  Similarity=0.142  Sum_probs=157.6

Q ss_pred             CCCCCCccccchhhhHHHhhhhc---cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI---GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      |.....|+|++..++.+..++..   .....+.+.|+|++|+|||+||+.+++.+...+.   +.. .... ..    ..
T Consensus        21 P~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~---~~~-~~~~-~~----~~   91 (328)
T PRK00080         21 PKSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR---ITS-GPAL-EK----PG   91 (328)
T ss_pred             cCCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE---EEe-cccc-cC----hH
Confidence            34567799999999999888763   2234567889999999999999999998654321   111 1000 00    11


Q ss_pred             HHHHHHHHhcCCC-CCCCCC-----ChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhh
Q 005191          255 LRNQVLSKLLGEN-FDIGTP-----KIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILE  328 (709)
Q Consensus       255 l~~~ll~~l~~~~-~~~~~~-----~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~  328 (709)
                      ....++..+.... .-+++.     ...+.+...+.+.+..+++|+..+...+..   .+   .+.+-|..|++...+..
T Consensus        92 ~l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~~---~l---~~~~li~at~~~~~l~~  165 (328)
T PRK00080         92 DLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIRL---DL---PPFTLIGATTRAGLLTS  165 (328)
T ss_pred             HHHHHHHhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCccccceee---cC---CCceEEeecCCcccCCH
Confidence            1122222221100 000000     012222333333344444444322221111   01   12344556666543332


Q ss_pred             hc--CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHHhhc
Q 005191          329 RY--GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKR  406 (709)
Q Consensus       329 ~~--~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~L~~  406 (709)
                      ..  .....+++++++.++..+++.+.+....  .....+.+..|++.|+|.|-.+..+...+..     |..... -..
T Consensus       166 ~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~--~~~~~~~~~~ia~~~~G~pR~a~~~l~~~~~-----~a~~~~-~~~  237 (328)
T PRK00080        166 PLRDRFGIVQRLEFYTVEELEKIVKRSARILG--VEIDEEGALEIARRSRGTPRIANRLLRRVRD-----FAQVKG-DGV  237 (328)
T ss_pred             HHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHHcCCCchHHHHHHHHHHH-----HHHHcC-CCC
Confidence            21  1135689999999999999998874332  2233467899999999999766555554321     110000 000


Q ss_pred             CCC---CcHHhHHHHhhcCCCHHHHHHHH-hccccccC-cchhHHHHHHhcCCchHHHHHH-HHHhCCCeEEe
Q 005191          407 ISD---SDIYGVLKIGYDELSWEEKNLFL-DIACFFNG-DDREHVMWILNDDYYSVQYGLN-VLVNKSLIKIS  473 (709)
Q Consensus       407 ~~~---~~i~~~L~~Sy~~L~~~~k~~fl-~lA~Fp~~-~~~~~l~~l~~~~g~~~~~~l~-~L~~rsLI~~~  473 (709)
                      ...   ......+...+..|++..+..+. .+..|..+ ...+.+...+..+...+++.++ .|++.+||+..
T Consensus       238 I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li~~~li~~~  310 (328)
T PRK00080        238 ITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLIQQGFIQRT  310 (328)
T ss_pred             CCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHHHcCCcccC
Confidence            000   11223456667889998888886 66677655 5889999999888888888888 99999999754

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

Probab=99.07  E-value=3.8e-09  Score=110.15  Aligned_cols=179  Identities=15%  Similarity=0.112  Sum_probs=108.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      +...+.|+|++|+|||||++.+++.+...--..+++..     .. .+..++...+...++..............+.+.+
T Consensus        42 ~~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~-----~~-~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l  115 (269)
T TIGR03015        42 REGFILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVN-----TR-VDAEDLLRMVAADFGLETEGRDKAALLRELEDFL  115 (269)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeC-----CC-CCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHH
Confidence            35689999999999999999999876532111122221     11 3445677777777654322211111233333322


Q ss_pred             -----ccCceEEEecCCCChh--hhhhhh---cCCCCCCCCeEEEEEcCchhhhhhc----------CcceEEEecCCCh
Q 005191          284 -----QRMKVFIVLDDVNKYG--QLEYFD---GGLDRFGPGSRIIVTTRDKTILERY----------GTHRIYEVEGLNC  343 (709)
Q Consensus       284 -----~~kr~LLVLDdv~~~~--~~~~l~---~~l~~~~~gsrIIvTTR~~~v~~~~----------~~~~~~~L~~L~~  343 (709)
                           .+++.+||+||++...  .++.+.   ...........|++|.... .....          .....+++++|+.
T Consensus       116 ~~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~  194 (269)
T TIGR03015       116 IEQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDR  194 (269)
T ss_pred             HHHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCH
Confidence                 5678999999997633  344433   2211112333456665433 11111          1134678999999


Q ss_pred             HHHHHHhhhcccccC--CCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          344 NEALRLFCSCAFKEN--HCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       344 ~ea~~Lf~~~a~~~~--~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      +|..+++...+....  ....-..+..+.|++.++|+|..|..++..+
T Consensus       195 ~e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       195 EETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999999887663221  1122345788999999999999999988876

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>COG3903 Predicted ATPase [General function prediction only]

Probab=99.06  E-value=1e-10  Score=123.25  Aligned_cols=281  Identities=19%  Similarity=0.213  Sum_probs=196.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..+.+.++|.|||||||++..+.. +...|...+++......+++    ..+.-.+...++-...+  .......+....
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~----~~v~~~~ag~~gl~~~~--g~~~~~~~~~~~   85 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDP----ALVFPTLAGALGLHVQP--GDSAVDTLVRRI   85 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCch----hHhHHHHHhhccccccc--chHHHHHHHHHH
Confidence            468999999999999999999999 88889999988877776554    22333333333222111  111455677788


Q ss_pred             ccCceEEEecCCCCh-hhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEecCCChH-HHHHHhhhcccccC---
Q 005191          284 QRMKVFIVLDDVNKY-GQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCN-EALRLFCSCAFKEN---  358 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~-~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L~~L~~~-ea~~Lf~~~a~~~~---  358 (709)
                      .+++.++|+||.... ++...+...+...++.-.++.|+|......   .+..+.+++|+.. ++.++|...+....   
T Consensus        86 ~~rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l~~---ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          86 GDRRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAILVA---GEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhhhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhccc---ccccccCCccccCCchhHHHHHHHHHhccce
Confidence            899999999999653 333444444444466778899999864332   5677888888876 78899877663211   


Q ss_pred             CCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHH----hhcCC------CCcHHhHHHHhhcCCCHHHH
Q 005191          359 HCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNN----LKRIS------DSDIYGVLKIGYDELSWEEK  428 (709)
Q Consensus       359 ~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~----L~~~~------~~~i~~~L~~Sy~~L~~~~k  428 (709)
                      ...........+|+++..|.|++|..+++..+.....+....++.    +....      .......+.+||.-|...++
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~  242 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWER  242 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHH
Confidence            122334456889999999999999999999988776665544443    33221      23467789999999999999


Q ss_pred             HHHHhccccccCcchhHHHHHHhc-----CCchHHHHHHHHHhCCCeEEe----CCEEEEcHHHHHHHHHHHhhh
Q 005191          429 NLFLDIACFFNGDDREHVMWILND-----DYYSVQYGLNVLVNKSLIKIS----YNKLQMHDLLQEMGREIVCQE  494 (709)
Q Consensus       429 ~~fl~lA~Fp~~~~~~~l~~l~~~-----~g~~~~~~l~~L~~rsLI~~~----~~~~~mHdlvr~~a~~~~~~e  494 (709)
                      -.|..++.|...|+.+.....-..     +.+.....+..|+++|++...    .-.|+.-+-++.|+.+...+.
T Consensus       243 ~~~~rLa~~~g~f~~~l~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r~  317 (414)
T COG3903         243 ALFGRLAVFVGGFDLGLALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHRS  317 (414)
T ss_pred             HHhcchhhhhhhhcccHHHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            999999999999877633222211     233455678889999998865    234777777788877766654

>PF05729 NACHT: NACHT domain

Probab=98.99  E-value=2.9e-09  Score=101.96  Aligned_cols=143  Identities=20%  Similarity=0.298  Sum_probs=85.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhccc-----ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFE-----GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIR  280 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-----~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~  280 (709)
                      |++.|+|.+|+||||+++.++.++.....     ...++...+..... .....+...+..........     ....+.
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~~l~~~~~~~~~~-----~~~~~~   74 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDS-NNSRSLADLLFDQLPESIAP-----IEELLQ   74 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhc-cccchHHHHHHHhhccchhh-----hHHHHH
Confidence            57899999999999999999998765532     22333334333322 11123333333333221111     111122


Q ss_pred             HH-HccCceEEEecCCCChhh---------hhhhh-cCCCC-CCCCeEEEEEcCchhh---hhhcCcceEEEecCCChHH
Q 005191          281 DR-LQRMKVFIVLDDVNKYGQ---------LEYFD-GGLDR-FGPGSRIIVTTRDKTI---LERYGTHRIYEVEGLNCNE  345 (709)
Q Consensus       281 ~~-L~~kr~LLVLDdv~~~~~---------~~~l~-~~l~~-~~~gsrIIvTTR~~~v---~~~~~~~~~~~L~~L~~~e  345 (709)
                      .. ...++++||||++++...         +..++ ..+.. ..+++++|||+|....   .........+++.+|+.++
T Consensus        75 ~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~  154 (166)
T PF05729_consen   75 ELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEED  154 (166)
T ss_pred             HHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHH
Confidence            22 256899999999965322         12222 11221 2578999999998765   2233344689999999999


Q ss_pred             HHHHhhhcc
Q 005191          346 ALRLFCSCA  354 (709)
Q Consensus       346 a~~Lf~~~a  354 (709)
                      ..+++.+..
T Consensus       155 ~~~~~~~~f  163 (166)
T PF05729_consen  155 IKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHh
Confidence            999987654

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

Probab=98.75  E-value=8.1e-08  Score=100.99  Aligned_cols=235  Identities=16%  Similarity=0.214  Sum_probs=130.0

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLS  261 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~  261 (709)
                      .+++|-+..+..   ++.  ++.+....+||++|+||||||+.++......|...--+.         .+..++..-+ .
T Consensus        30 ~HLlg~~~~lrr---~v~--~~~l~SmIl~GPPG~GKTTlA~liA~~~~~~f~~~sAv~---------~gvkdlr~i~-e   94 (436)
T COG2256          30 EHLLGEGKPLRR---AVE--AGHLHSMILWGPPGTGKTTLARLIAGTTNAAFEALSAVT---------SGVKDLREII-E   94 (436)
T ss_pred             HhhhCCCchHHH---HHh--cCCCceeEEECCCCCCHHHHHHHHHHhhCCceEEecccc---------ccHHHHHHHH-H
Confidence            344554444443   333  335677789999999999999999997766654221111         3333333222 1


Q ss_pred             HhcCCCCCCCCCChhHHHHHHHccCceEEEecCCC--ChhhhhhhhcCCCCCCCCeEEEE--EcCchhhh---hhcCcce
Q 005191          262 KLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVN--KYGQLEYFDGGLDRFGPGSRIIV--TTRDKTIL---ERYGTHR  334 (709)
Q Consensus       262 ~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~--~~~~~~~l~~~l~~~~~gsrIIv--TTR~~~v~---~~~~~~~  334 (709)
                      .               .-+....+++.+|++|.|.  +..+-+.|++.+   ..|.-|+|  ||-++...   ...+...
T Consensus        95 ~---------------a~~~~~~gr~tiLflDEIHRfnK~QQD~lLp~v---E~G~iilIGATTENPsF~ln~ALlSR~~  156 (436)
T COG2256          95 E---------------ARKNRLLGRRTILFLDEIHRFNKAQQDALLPHV---ENGTIILIGATTENPSFELNPALLSRAR  156 (436)
T ss_pred             H---------------HHHHHhcCCceEEEEehhhhcChhhhhhhhhhh---cCCeEEEEeccCCCCCeeecHHHhhhhh
Confidence            1               1122334789999999995  455667777765   35666665  66665321   1123457


Q ss_pred             EEEecCCChHHHHHHhhhcccccC-----CCChhhHHHHHHHHHHhcCCchHHHH---HhhhhcC-C---ChhhHHHHHH
Q 005191          335 IYEVEGLNCNEALRLFCSCAFKEN-----HCPEDLLKHSETAAHYAKGNPLALQV---LGSSFHR-K---SKPDWVNTLN  402 (709)
Q Consensus       335 ~~~L~~L~~~ea~~Lf~~~a~~~~-----~~~~~~~~~~~~Iv~~~gGlPLAL~~---la~~L~~-~---~~~ew~~~L~  402 (709)
                      ++++++|+.++-.+++.+-+....     ......++....+++.++|---+.--   ++..+.. .   ..+..++.++
T Consensus       157 vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~  236 (436)
T COG2256         157 VFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQ  236 (436)
T ss_pred             eeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHh
Confidence            999999999999999987332111     11112345677888888886543322   2222222 1   1233344443


Q ss_pred             HhhcC------CCCcHHhHHHHhhcCCCHHHHHHHHhccccccCcchhHHHHHH
Q 005191          403 NLKRI------SDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWIL  450 (709)
Q Consensus       403 ~L~~~------~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~~~~~l~~l~  450 (709)
                      +-...      .+-++..+|..|...=++++- ++..+-++-.|.+...+.+++
T Consensus       237 ~~~~~~Dk~gD~hYdliSA~hKSvRGSD~dAA-LyylARmi~~GeDp~yiARRl  289 (436)
T COG2256         237 RRSARFDKDGDAHYDLISALHKSVRGSDPDAA-LYYLARMIEAGEDPLYIARRL  289 (436)
T ss_pred             hhhhccCCCcchHHHHHHHHHHhhccCCcCHH-HHHHHHHHhcCCCHHHHHHHH
Confidence            31111      112366677777766655432 222223344455565555544

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.68  E-value=9.9e-07  Score=97.76  Aligned_cols=180  Identities=17%  Similarity=0.293  Sum_probs=107.5

Q ss_pred             CCCCCccccchhhhH---HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          179 SDSDGLIGLESHVEQ---VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       179 ~~~~~~vGR~~el~~---L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      ...+.+||.+..+..   +..++..+  ....+.|+|++|+||||||+.+++.....|.   .+.   ...   .+... 
T Consensus         9 ~~l~d~vGq~~~v~~~~~L~~~i~~~--~~~~ilL~GppGtGKTtLA~~ia~~~~~~~~---~l~---a~~---~~~~~-   76 (413)
T PRK13342          9 KTLDEVVGQEHLLGPGKPLRRMIEAG--RLSSMILWGPPGTGKTTLARIIAGATDAPFE---ALS---AVT---SGVKD-   76 (413)
T ss_pred             CCHHHhcCcHHHhCcchHHHHHHHcC--CCceEEEECCCCCCHHHHHHHHHHHhCCCEE---EEe---ccc---ccHHH-
Confidence            345678999888766   77777643  4567889999999999999999987654331   111   000   11111 


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEE--EcCchh--hhh-
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIV--TTRDKT--ILE-  328 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIv--TTR~~~--v~~-  328 (709)
                      .+.++....               .....+++.+|+||+++..  .+.+.++..+.   .+..++|  ||.+..  +.. 
T Consensus        77 ir~ii~~~~---------------~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         77 LREVIEEAR---------------QRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             HHHHHHHHH---------------HhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHH
Confidence            112221110               0011357789999999753  45556665543   2444444  344432  111 


Q ss_pred             hcCcceEEEecCCChHHHHHHhhhcccccCCCC-hhhHHHHHHHHHHhcCCchHHHHHhhh
Q 005191          329 RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCP-EDLLKHSETAAHYAKGNPLALQVLGSS  388 (709)
Q Consensus       329 ~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~Iv~~~gGlPLAL~~la~~  388 (709)
                      ..+...++.+.+++.++..+++.+.+....... ....+..+.|++.++|.|..+..+...
T Consensus       139 L~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le~  199 (413)
T PRK13342        139 LLSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLEL  199 (413)
T ss_pred             HhccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            112236789999999999999987653211111 233466788999999999776554443

>PRK06893 DNA replication initiation factor; Validated

Probab=98.66  E-value=2.6e-07  Score=93.88  Aligned_cols=154  Identities=14%  Similarity=0.175  Sum_probs=94.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      .+.+.|+|++|+|||+|+..+++....+.....|+... ..       ......                    +.+.+.
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~-~~-------~~~~~~--------------------~~~~~~   90 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLS-KS-------QYFSPA--------------------VLENLE   90 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHH-Hh-------hhhhHH--------------------HHhhcc
Confidence            46789999999999999999999876665566666521 00       000001                    111111


Q ss_pred             cCceEEEecCCCCh---hhhh-hhhcCCCCC-CCCeEEEE-EcCc---------hhhhhhcCcceEEEecCCChHHHHHH
Q 005191          285 RMKVFIVLDDVNKY---GQLE-YFDGGLDRF-GPGSRIIV-TTRD---------KTILERYGTHRIYEVEGLNCNEALRL  349 (709)
Q Consensus       285 ~kr~LLVLDdv~~~---~~~~-~l~~~l~~~-~~gsrIIv-TTR~---------~~v~~~~~~~~~~~L~~L~~~ea~~L  349 (709)
                       +.-+|+|||++..   ..|+ .+...+... ..|..+|+ |+..         +.+...+....++++++++.++.+++
T Consensus        91 -~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~i  169 (229)
T PRK06893         91 -QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIV  169 (229)
T ss_pred             -cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHH
Confidence             2349999999753   3333 222222211 23555654 4543         23344444456889999999999999


Q ss_pred             hhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          350 FCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       350 f~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      +.+.+....  -.-.++..+-|++.+.|..-.+..+-..|
T Consensus       170 L~~~a~~~~--l~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        170 LQRNAYQRG--IELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            998885433  12234667888888888877666555444

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.64  E-value=1.2e-06  Score=100.72  Aligned_cols=244  Identities=14%  Similarity=0.080  Sum_probs=129.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhc---cCCCceEEEEEccCCCchhHHHHHHHHHhhhc-----cc-c-eEEEeeeccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI---GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-----FE-G-KYFMANVREESE  247 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-----f~-~-~~~v~~~~~~~~  247 (709)
                      ...|+.+.||++|+++|...|..   ++....++.|+|++|.|||+.++.+.+++...     .+ . .+++. ....  
T Consensus       751 DYVPD~LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYIN-Cm~L--  827 (1164)
T PTZ00112        751 DVVPKYLPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEIN-GMNV--  827 (1164)
T ss_pred             ccCCCcCCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEe-CCcc--
Confidence            45678999999999999998864   23334677899999999999999999876432     12 1 23333 2111  


Q ss_pred             ccCCHHHHHHHHHHHhcCCCCCCCC--CChhHHHHHHHc---cCceEEEecCCCChh-----hhhhhhcCCCCCCCCeEE
Q 005191          248 KCGGLVHLRNQVLSKLLGENFDIGT--PKIPQYIRDRLQ---RMKVFIVLDDVNKYG-----QLEYFDGGLDRFGPGSRI  317 (709)
Q Consensus       248 ~~~~l~~l~~~ll~~l~~~~~~~~~--~~~~~~l~~~L~---~kr~LLVLDdv~~~~-----~~~~l~~~l~~~~~gsrI  317 (709)
                        .....+...+..++....+....  .+....+...+.   +...+||||+++...     .+-.|.....  ..+++|
T Consensus       828 --stp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--~s~SKL  903 (1164)
T PTZ00112        828 --VHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--KINSKL  903 (1164)
T ss_pred             --CCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--ccCCeE
Confidence              33455666676777333222111  113333333332   234699999996432     1222222111  234444


Q ss_pred             EE--EcCchhh--------hhhcCcceEEEecCCChHHHHHHhhhccccc-C-CCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          318 IV--TTRDKTI--------LERYGTHRIYEVEGLNCNEALRLFCSCAFKE-N-HCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       318 Iv--TTR~~~v--------~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~-~-~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ++  +|.+...        ...++ ...+..+|++.++-.+++..++-.. . ..++..+-+++.++...|-.=.||.++
T Consensus       904 iLIGISNdlDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDIL  982 (1164)
T PTZ00112        904 VLIAISNTMDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQIC  982 (1164)
T ss_pred             EEEEecCchhcchhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHH
Confidence            33  3432211        11122 2346779999999999999887422 1 122222223333333333444555554


Q ss_pred             hhhhcCC-----ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccc
Q 005191          386 GSSFHRK-----SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIAC  436 (709)
Q Consensus       386 a~~L~~~-----~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~  436 (709)
                      -......     ..+....+.+++.       ...+......||.+.|.+|..+..
T Consensus       983 RrAgEikegskVT~eHVrkAleeiE-------~srI~e~IktLPlHqKLVLlALIl 1031 (1164)
T PTZ00112        983 RKAFENKRGQKIVPRDITEATNQLF-------DSPLTNAINYLPWPFKMFLTCLIV 1031 (1164)
T ss_pred             HHHHhhcCCCccCHHHHHHHHHHHH-------hhhHHHHHHcCCHHHHHHHHHHHH
Confidence            4333211     1222233332221       122444567899998887775443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.57  E-value=8.7e-07  Score=89.82  Aligned_cols=176  Identities=17%  Similarity=0.227  Sum_probs=103.2

Q ss_pred             CCCccc--cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          181 SDGLIG--LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       181 ~~~~vG--R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .+.|++  .+..++.+.+++..  ...+.+.|+|++|+|||+||+.++++........+++. ......       ....
T Consensus        14 ~~~~~~~~~~~~~~~l~~~~~~--~~~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~~~~-------~~~~   83 (226)
T TIGR03420        14 FDNFYAGGNAELLAALRQLAAG--KGDRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAELAQ-------ADPE   83 (226)
T ss_pred             hcCcCcCCcHHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHHHHH-------hHHH
Confidence            345553  33456677776542  34678899999999999999999987655444444544 111110       0001


Q ss_pred             HHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh---h-hhhhhcCCCC-CCCCeEEEEEcCchh--------
Q 005191          259 VLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG---Q-LEYFDGGLDR-FGPGSRIIVTTRDKT--------  325 (709)
Q Consensus       259 ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~---~-~~~l~~~l~~-~~~gsrIIvTTR~~~--------  325 (709)
                      ++                    ..+.+ .-+|||||++...   . .+.+...+.. ...+..+|+||+...        
T Consensus        84 ~~--------------------~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~  142 (226)
T TIGR03420        84 VL--------------------EGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLP  142 (226)
T ss_pred             HH--------------------hhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccH
Confidence            11                    11122 2489999996532   1 2333322211 123447888887532        


Q ss_pred             -hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          326 -ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       326 -v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                       +...+.....+++++++.++...++...+-...  ..-..+..+.|++.++|+|..+..+...+
T Consensus       143 ~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~--~~~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       143 DLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRG--LQLPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             HHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence             111222235789999999999999876542221  12234567788888999998887765544

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.53  E-value=6e-06  Score=89.42  Aligned_cols=201  Identities=13%  Similarity=0.078  Sum_probs=114.6

Q ss_pred             CCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc--cceEEEeeecccccccCCHHH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF--EGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      .|.....++|.+...+.|.+.+..+ .-...+.++|+.|+||+++|..+++.+-.+-  .....-.... .... .+...
T Consensus        14 ~P~~~~~iiGq~~~~~~L~~~~~~~-rl~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~-~l~~-~~~c~   90 (365)
T PRK07471         14 HPRETTALFGHAAAEAALLDAYRSG-RLHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPT-SLAI-DPDHP   90 (365)
T ss_pred             CCCchhhccChHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccc-cccC-CCCCh
Confidence            4556678999999999999888754 2256788999999999999999998753211  1100000000 0000 00001


Q ss_pred             HHHHHHHHhcCC------C-CCCC---CCC-hhHHHHH---HH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCC
Q 005191          255 LRNQVLSKLLGE------N-FDIG---TPK-IPQYIRD---RL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGP  313 (709)
Q Consensus       255 l~~~ll~~l~~~------~-~~~~---~~~-~~~~l~~---~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~  313 (709)
                      ..+.+.......      . .+..   ... .++.+++   .+     .+++-++|+|+++.  ......++..+....+
T Consensus        91 ~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~  170 (365)
T PRK07471         91 VARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPA  170 (365)
T ss_pred             HHHHHHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCC
Confidence            111111110000      0 0000   011 2333433   32     24567999999964  4556666666654445


Q ss_pred             CeEEEEEcCchh-hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          314 GSRIIVTTRDKT-ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       314 gsrIIvTTR~~~-v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ++.+|++|.+.. +.... +.-..+.+.+++.++..+++......   .+   .+....+++.++|.|+....+.
T Consensus       171 ~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~---~~---~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        171 RSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD---LP---DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             CeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc---CC---HHHHHHHHHHcCCCHHHHHHHh
Confidence            666777776653 33222 23468899999999999999876411   11   1223678999999998665543

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

Probab=98.49  E-value=1e-05  Score=87.58  Aligned_cols=282  Identities=16%  Similarity=0.138  Sum_probs=164.0

Q ss_pred             CCCCCCCccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccc--eEEEeeecccccccCCH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG--KYFMANVREESEKCGGL  252 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~v~~~~~~~~~~~~l  252 (709)
                      +...|..+.+|+.+++++...|..  ....+.-+.|+|.+|+|||+.++.+.+++......  .+++. ...    ....
T Consensus        12 ~~~iP~~l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yIN-c~~----~~t~   86 (366)
T COG1474          12 EDYIPEELPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYIN-CLE----LRTP   86 (366)
T ss_pred             CCCCcccccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEe-eee----CCCH
Confidence            344566799999999999998864  22223448899999999999999999988776443  35555 222    2566


Q ss_pred             HHHHHHHHHHhcC-CCCCCCCCChhHHHHHHHcc--CceEEEecCCCChh-----hhhhhhcCCCCCCCCeEE--EEEcC
Q 005191          253 VHLRNQVLSKLLG-ENFDIGTPKIPQYIRDRLQR--MKVFIVLDDVNKYG-----QLEYFDGGLDRFGPGSRI--IVTTR  322 (709)
Q Consensus       253 ~~l~~~ll~~l~~-~~~~~~~~~~~~~l~~~L~~--kr~LLVLDdv~~~~-----~~~~l~~~l~~~~~gsrI--IvTTR  322 (709)
                      ..+...++.+++. ........+....+.+.+..  +.+++|||+++...     .+-.+.......  .++|  |..+-
T Consensus        87 ~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n  164 (366)
T COG1474          87 YQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSN  164 (366)
T ss_pred             HHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEec
Confidence            7888888888852 22223333366666666654  78999999996432     222333222221  3443  33443


Q ss_pred             chhhhh--------hcCcceEEEecCCChHHHHHHhhhccc---ccCCCChhhHHHHHHHHHHhcC-CchHHHHHh--hh
Q 005191          323 DKTILE--------RYGTHRIYEVEGLNCNEALRLFCSCAF---KENHCPEDLLKHSETAAHYAKG-NPLALQVLG--SS  388 (709)
Q Consensus       323 ~~~v~~--------~~~~~~~~~L~~L~~~ea~~Lf~~~a~---~~~~~~~~~~~~~~~Iv~~~gG-lPLAL~~la--~~  388 (709)
                      +.....        ..+. ..+..+|-+.+|-.+.+..++-   ......+...+++..++...+| -=.||..+-  +.
T Consensus       165 ~~~~~~~ld~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A~e  243 (366)
T COG1474         165 DDKFLDYLDPRVKSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRAGE  243 (366)
T ss_pred             cHHHHHHhhhhhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHHHH
Confidence            332222        2222 3478899999999999987762   3334444444555555555554 334444432  22


Q ss_pred             hcCC------ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccccccCcch----hHHHHHHhcCCc---
Q 005191          389 FHRK------SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDR----EHVMWILNDDYY---  455 (709)
Q Consensus       389 L~~~------~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~~~----~~l~~l~~~~g~---  455 (709)
                      +.++      +.+.-.......       -..........||.+.|..+..++....++..    +....+....+.   
T Consensus       244 iAe~~~~~~v~~~~v~~a~~~~-------~~~~~~~~~~~L~~~~ki~L~~i~~~~~~~~~~~~y~~y~~~~~~~~~~~~  316 (366)
T COG1474         244 IAEREGSRKVSEDHVREAQEEI-------ERDVLEEVLKTLPLHQKIVLLAIVELTVEISTGELYDVYESLCERLRTSQR  316 (366)
T ss_pred             HHHhhCCCCcCHHHHHHHHHHh-------hHHHHHHHHHcCCHhHHHHHHHHHHhcCCCChHHHHHHHHHHHhhhCchHH
Confidence            2221      111111111111       12334555788999888887766655333332    222333333333   


Q ss_pred             hHHHHHHHHHhCCCeEEe
Q 005191          456 SVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       456 ~~~~~l~~L~~rsLI~~~  473 (709)
                      ...+.+.+|...++|...
T Consensus       317 ~~~~ii~~L~~lgiv~~~  334 (366)
T COG1474         317 RFSDIISELEGLGIVSAS  334 (366)
T ss_pred             HHHHHHHHHHhcCeEEee
Confidence            344678899999999865

>PF13173 AAA_14: AAA domain

Probab=98.49  E-value=8.3e-07  Score=81.60  Aligned_cols=120  Identities=21%  Similarity=0.276  Sum_probs=77.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      .+++.|.|+.|+|||||+++++++.. .-...+++. ....       . .....            ..+..+.+.+...
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~-~~~~-------~-~~~~~------------~~~~~~~~~~~~~   59 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN-FDDP-------R-DRRLA------------DPDLLEYFLELIK   59 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeec-cCCH-------H-HHHHh------------hhhhHHHHHHhhc
Confidence            36889999999999999999998765 223444554 1111       0 00000            0001223333333


Q ss_pred             cCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhc------CcceEEEecCCChHHH
Q 005191          285 RMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERY------GTHRIYEVEGLNCNEA  346 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~------~~~~~~~L~~L~~~ea  346 (709)
                      .++.+++||++.....|......+....++.+|++|+........-      +....+++.||+..|-
T Consensus        60 ~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   60 PGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             cCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            4788999999988888877776666555678999999887655321      2335789999998773

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.49  E-value=3.1e-06  Score=96.92  Aligned_cols=193  Identities=16%  Similarity=0.128  Sum_probs=112.3

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      ...+.+||.+..++.|.+++..+. -.+.+.++|..|+||||+|+.+++.+...-..    .     ... .+.-...+.
T Consensus        13 qtFdEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~----~-----~~P-CG~C~sCr~   81 (830)
T PRK07003         13 KDFASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGV----T-----SQP-CGVCRACRE   81 (830)
T ss_pred             CcHHHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCC----C-----CCC-CcccHHHHH
Confidence            445679999999999999987442 25677899999999999999999875321000    0     000 000011111


Q ss_pred             HHHHhcCCCCCCC--CCChhHHHHHHH--------ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchh-
Q 005191          259 VLSKLLGENFDIG--TPKIPQYIRDRL--------QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKT-  325 (709)
Q Consensus       259 ll~~l~~~~~~~~--~~~~~~~l~~~L--------~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~-  325 (709)
                      +...-......++  ....++.+++.+        .++.-++|||+++..  ..++.++..+.......++|+||.+.. 
T Consensus        82 I~~G~h~DviEIDAas~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~K  161 (830)
T PRK07003         82 IDEGRFVDYVEMDAASNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQK  161 (830)
T ss_pred             HhcCCCceEEEecccccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhh
Confidence            1100000000000  000111121111        234558999999754  346777766665556788888887763 


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc-hHHHH
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP-LALQV  384 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP-LAL~~  384 (709)
                      +... .+.-..+.+++++.++..+.+.+.+.....  ....+....|++.++|.. -++..
T Consensus       162 Ip~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI--~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        162 IPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI--AFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             ccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            2222 122367899999999999998877633221  223456788899998865 35544

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=5.1e-06  Score=90.46  Aligned_cols=193  Identities=16%  Similarity=0.102  Sum_probs=111.1

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|-+.-++.+.+.+..+ .-.+.+.++|++|+||||+|+.+++.+.......         ..+ .+.-.....
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~~-~~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~---------~~p-c~~c~~c~~   81 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSLG-RIHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT---------SNP-CRKCIICKE   81 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHcC-CCCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC---------CCC-CCCCHHHHH
Confidence            44567999999999999988743 2356789999999999999999998764211000         000 000000111


Q ss_pred             HHHHhcCCCC--CC---CCCChhHHHHHHH-----ccCceEEEecCCCChh--hhhhhhcCCCCCCCCeEEEEEcCch-h
Q 005191          259 VLSKLLGENF--DI---GTPKIPQYIRDRL-----QRMKVFIVLDDVNKYG--QLEYFDGGLDRFGPGSRIIVTTRDK-T  325 (709)
Q Consensus       259 ll~~l~~~~~--~~---~~~~~~~~l~~~L-----~~kr~LLVLDdv~~~~--~~~~l~~~l~~~~~gsrIIvTTR~~-~  325 (709)
                      +.........  +.   ...+....+.+.+     .+++-++|+|+++...  .++.++..+.......++|++|.+. .
T Consensus        82 ~~~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~  161 (363)
T PRK14961         82 IEKGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEK  161 (363)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHh
Confidence            1110000000  00   0000111122221     2345699999997644  4666776666555677777776554 2


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      +.... +....+++++++.++..+.+...+-...  .....+.+..|++.++|.|-.+..
T Consensus       162 l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g--~~i~~~al~~ia~~s~G~~R~al~  219 (363)
T PRK14961        162 IPKTILSRCLQFKLKIISEEKIFNFLKYILIKES--IDTDEYALKLIAYHAHGSMRDALN  219 (363)
T ss_pred             hhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            32221 2236889999999999998877653322  112235678899999998864433

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.47  E-value=3.8e-06  Score=90.57  Aligned_cols=199  Identities=15%  Similarity=0.105  Sum_probs=107.8

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-cc-eEEEeeecccccccCCHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EG-KYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~-~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      .....++|++..++.|.+++..+  ..+.+.++|++|+||||+|+.+++.+.... .. ..++. ..+....  ....+.
T Consensus        12 ~~~~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~-~~~~~~~--~~~~~~   86 (337)
T PRK12402         12 ALLEDILGQDEVVERLSRAVDSP--NLPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFN-VADFFDQ--GKKYLV   86 (337)
T ss_pred             CcHHHhcCCHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEec-hhhhhhc--chhhhh
Confidence            34467899999999999988743  344678999999999999999998765332 22 22222 1111000  000000


Q ss_pred             H--HHHHHhcCC-CCCCCCCChhHH-HHHHH-----ccCceEEEecCCCChh--hhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          257 N--QVLSKLLGE-NFDIGTPKIPQY-IRDRL-----QRMKVFIVLDDVNKYG--QLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       257 ~--~ll~~l~~~-~~~~~~~~~~~~-l~~~L-----~~kr~LLVLDdv~~~~--~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      .  ......+.. .......+.... +....     ...+-+||+||++...  ....+...+......+++|+||....
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~  166 (337)
T PRK12402         87 EDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPS  166 (337)
T ss_pred             cCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChh
Confidence            0  000000000 000000111111 11111     1334589999996532  23334433333345567877775432


Q ss_pred             -hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          326 -ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       326 -v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                       +.... +....+++.+++.++..+++...+.....  .-..+.++.+++.++|++-.+..
T Consensus       167 ~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~--~~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        167 KLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGV--DYDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence             22221 22357889999999999998876633221  12346688899999988765544

>PF14516 AAA_35: AAA-like domain

Probab=98.46  E-value=7e-05  Score=80.43  Aligned_cols=281  Identities=14%  Similarity=0.103  Sum_probs=149.4

Q ss_pred             CCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc-ccCCHHHH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE-KCGGLVHL  255 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~-~~~~l~~l  255 (709)
                      .+.+++..|+|...-+++.+.+..   ....+.|.|+-.+|||+|...+.+.....--..+++. +..... ...+...+
T Consensus         6 ~~~~~~~Yi~R~~~e~~~~~~i~~---~G~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id-~~~~~~~~~~~~~~f   81 (331)
T PF14516_consen    6 LPLDSPFYIERPPAEQECYQEIVQ---PGSYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYID-LQQLGSAIFSDLEQF   81 (331)
T ss_pred             CCCCCCcccCchHHHHHHHHHHhc---CCCEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEE-eecCCCcccCCHHHH
Confidence            455667788998666666666652   2468999999999999999999988765422233443 333221 12344444


Q ss_pred             HHHHHHH----hcCCCC-------CCCCC-ChhHHHHHHH---ccCceEEEecCCCChhh----hhhhhcCCC-C-----
Q 005191          256 RNQVLSK----LLGENF-------DIGTP-KIPQYIRDRL---QRMKVFIVLDDVNKYGQ----LEYFDGGLD-R-----  310 (709)
Q Consensus       256 ~~~ll~~----l~~~~~-------~~~~~-~~~~~l~~~L---~~kr~LLVLDdv~~~~~----~~~l~~~l~-~-----  310 (709)
                      .+.+...    ++....       ..... .....+.+.+   .+++.+|+||+++..-.    .+.+...+. +     
T Consensus        82 ~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~  161 (331)
T PF14516_consen   82 LRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRK  161 (331)
T ss_pred             HHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcc
Confidence            4444444    322110       01111 1334444433   25899999999964221    122222111 0     


Q ss_pred             -CC--CCeEEEE-EcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH
Q 005191          311 -FG--PGSRIIV-TTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       311 -~~--~gsrIIv-TTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA  381 (709)
                       ..  ..-++++ .+........     ......++|++++.+|...|+.++-..      ......++|...+||+|..
T Consensus       162 ~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~------~~~~~~~~l~~~tgGhP~L  235 (331)
T PF14516_consen  162 NNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE------FSQEQLEQLMDWTGGHPYL  235 (331)
T ss_pred             cCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc------CCHHHHHHHHHHHCCCHHH
Confidence             00  1122222 2211111111     123357899999999999998876421      1122389999999999999


Q ss_pred             HHHHhhhhcCCChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccccccCcc-hhHHHHHHhcCCc--hHH
Q 005191          382 LQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDD-REHVMWILNDDYY--SVQ  458 (709)
Q Consensus       382 L~~la~~L~~~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~~-~~~l~~l~~~~g~--~~~  458 (709)
                      +..++..+..... ..+.+++.-.... ...           +++.+.++..+   ..... .+.+..++.....  ...
T Consensus       236 v~~~~~~l~~~~~-~~~~l~~~a~~~~-~~~-----------~~hL~~l~~~L---~~~~~L~~~~~~il~~~~~~~~~~  299 (331)
T PF14516_consen  236 VQKACYLLVEEQI-TLEQLLEEAITDN-GIY-----------NDHLDRLLDRL---QQNPELLEAYQQILFSGEPVDLDS  299 (331)
T ss_pred             HHHHHHHHHHccC-cHHHHHHHHHHhc-ccH-----------HHHHHHHHHHH---ccCHHHHHHHHHHHhCCCCcccCh
Confidence            9999999966321 1222332211000 011           12333333333   11111 1222223322111  122


Q ss_pred             HHHHHHHhCCCeEEeCCEEEEcHHH
Q 005191          459 YGLNVLVNKSLIKISYNKLQMHDLL  483 (709)
Q Consensus       459 ~~l~~L~~rsLI~~~~~~~~mHdlv  483 (709)
                      .....|...|||...++.+.+..-+
T Consensus       300 ~~~~~L~~~GLV~~~~~~~~~~n~i  324 (331)
T PF14516_consen  300 DDIYKLESLGLVKRDGNQLEVRNPI  324 (331)
T ss_pred             HHHHHHHHCCeEEEeCCEEEEEcHH
Confidence            3577899999999998888775443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.45  E-value=5e-06  Score=88.84  Aligned_cols=183  Identities=15%  Similarity=0.181  Sum_probs=106.0

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .-..++|++..++.+..++..+  ..+.+.|+|++|+||||+|+.+++.+... +.. .++. ... +.. .... ....
T Consensus        15 ~~~~~~g~~~~~~~l~~~i~~~--~~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~-~~i~-~~~-~~~-~~~~-~~~~   87 (319)
T PRK00440         15 TLDEIVGQEEIVERLKSYVKEK--NMPHLLFAGPPGTGKTTAALALARELYGEDWRE-NFLE-LNA-SDE-RGID-VIRN   87 (319)
T ss_pred             cHHHhcCcHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHcCCcccc-ceEE-ecc-ccc-cchH-HHHH
Confidence            3456899999999999988743  33457999999999999999999876432 221 1221 100 110 1111 1111


Q ss_pred             HHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-hhhhh-cCcce
Q 005191          259 VLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-TILER-YGTHR  334 (709)
Q Consensus       259 ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~-~~~~~  334 (709)
                      .+..+....+ .            ....+-++++|+++..  ...+.+...+....+.+.+|+++... .+... .....
T Consensus        88 ~i~~~~~~~~-~------------~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~  154 (319)
T PRK00440         88 KIKEFARTAP-V------------GGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCA  154 (319)
T ss_pred             HHHHHHhcCC-C------------CCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhh
Confidence            1111110000 0            0123558999998643  23344444444444556777766433 11111 11234


Q ss_pred             EEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          335 IYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       335 ~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      .+++++++.++....+...+.....  .-..+.+..+++.++|.+--+..
T Consensus       155 ~~~~~~l~~~ei~~~l~~~~~~~~~--~i~~~al~~l~~~~~gd~r~~~~  202 (319)
T PRK00440        155 VFRFSPLKKEAVAERLRYIAENEGI--EITDDALEAIYYVSEGDMRKAIN  202 (319)
T ss_pred             eeeeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence            6899999999999888877643221  12345688899999998866433

>PRK04195 replication factor C large subunit; Provisional

Probab=98.44  E-value=5.2e-06  Score=93.89  Aligned_cols=186  Identities=16%  Similarity=0.113  Sum_probs=110.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhcc--CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIG--LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      |.....++|.+..++.|.+|+..-  ....+.+.|+|++|+||||+|..+++.+.  ++.  ...+..   +  ......
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~--~~~--ielnas---d--~r~~~~   80 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG--WEV--IELNAS---D--QRTADV   80 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC--CCE--EEEccc---c--cccHHH
Confidence            344567999999999999998742  12268899999999999999999999863  221  111111   1  111122


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh------hhhhhhcCCCCCCCCeEEEEEcCchh-hhh
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG------QLEYFDGGLDRFGPGSRIIVTTRDKT-ILE  328 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~------~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~  328 (709)
                      ...++........             ....++-+||||+++...      .+..+...+.  ..+..||+|+.+.. ...
T Consensus        81 i~~~i~~~~~~~s-------------l~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~  145 (482)
T PRK04195         81 IERVAGEAATSGS-------------LFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSL  145 (482)
T ss_pred             HHHHHHHhhccCc-------------ccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccch
Confidence            2233222211000             011357799999997532      2444444333  23345666664431 111


Q ss_pred             -h-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          329 -R-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       329 -~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                       . -.....+++++++.++....+...+......  ...+....|++.++|..-.+......+
T Consensus       146 k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~--i~~eaL~~Ia~~s~GDlR~ain~Lq~~  206 (482)
T PRK04195        146 RELRNACLMIEFKRLSTRSIVPVLKRICRKEGIE--CDDEALKEIAERSGGDLRSAINDLQAI  206 (482)
T ss_pred             hhHhccceEEEecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence             1 1233678999999999998887766332211  224668899999999776655433333

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=6.1e-06  Score=93.41  Aligned_cols=200  Identities=13%  Similarity=0.094  Sum_probs=113.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....+||-+.-++.|.+.+..+. -.+.+.++|+.|+||||+|+.+++.+...-...  ....  .... .+......
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~--~~g~--~~~P-CG~C~sC~   85 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADG--EGGI--TAQP-CGQCRACT   85 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccc--cccC--CCCC-CcccHHHH
Confidence            3445679999999999999987442 246778999999999999999998754210000  0000  0000 00001111


Q ss_pred             HHHHHhcCCCCCCC--CCChhHHHHHHH--------ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc-h
Q 005191          258 QVLSKLLGENFDIG--TPKIPQYIRDRL--------QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD-K  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~~--~~~~~~~l~~~L--------~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~-~  324 (709)
                      .+...-......++  ....++.+++.+        .++.-++|||+++.  ....+.|+..+..-..+..+|++|.+ .
T Consensus        86 ~I~aG~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~  165 (700)
T PRK12323         86 EIDAGRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQ  165 (700)
T ss_pred             HHHcCCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChH
Confidence            11100000000000  000122222211        34566999999975  45677787777654556666555544 4


Q ss_pred             hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          325 TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       325 ~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      .+.... +.-..+.++.++.++..+.+.+.+.....  ....+....|++.++|.|.-...+
T Consensus       166 kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi--~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        166 KIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI--AHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             hhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            443322 12367899999999999988876532221  122345688899999998654433

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=7.7e-06  Score=92.19  Aligned_cols=189  Identities=14%  Similarity=0.060  Sum_probs=111.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh--cccceEEEeeecccccccCCHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ--KFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      ..-..++|-+.-.+.|.+++..+. -.+.+.++|++|+||||+|+.+++.+..  .+...|+.+..             .
T Consensus        11 ~~~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~s-------------c   76 (504)
T PRK14963         11 ITFDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECES-------------C   76 (504)
T ss_pred             CCHHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChh-------------h
Confidence            344668999988888888887542 2467799999999999999999987642  12223332210             0


Q ss_pred             HHHHHHhcCCC-----CCCCCCChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          257 NQVLSKLLGEN-----FDIGTPKIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       257 ~~ll~~l~~~~-----~~~~~~~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      ..+........     ......+....+.+.+     .+++-++|||+++..  ..++.++..+....+.+.+|++|...
T Consensus        77 ~~i~~~~h~dv~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~  156 (504)
T PRK14963         77 LAVRRGAHPDVLEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEP  156 (504)
T ss_pred             HHHhcCCCCceEEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCCh
Confidence            00000000000     0000001122222222     235668999999753  45667776665544566666665443


Q ss_pred             -hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHH
Q 005191          325 -TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQ  383 (709)
Q Consensus       325 -~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~  383 (709)
                       .+.... +....+++.+++.++..+.+.+.+-....  ....+.+..|++.++|.+--+.
T Consensus       157 ~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi--~i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        157 EKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGR--EAEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             hhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence             332222 23468999999999999999887633221  1234568889999999986543

>KOG3678 consensus SARM protein (with sterile alpha and armadillo motifs) [Extracellular structures]

Probab=98.43  E-value=4.1e-07  Score=95.96  Aligned_cols=92  Identities=32%  Similarity=0.529  Sum_probs=78.7

Q ss_pred             CCCCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccc------
Q 005191            1 MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASS------   73 (709)
Q Consensus         1 ~~~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S------   73 (709)
                      |.+...||||||+.. +....++-|.-.|.-+|++||+|- .+..|. +.+.+.+.|..++..|.|+|||....      
T Consensus       608 ~~skq~DVFISYRRs-tGnQLASLiKV~LQL~GyrVFIDVdKL~AGK-FdssLlkni~aAkhFiLVLtP~sLDr~lnD~n  685 (832)
T KOG3678|consen  608 MLSKQIDVFISYRRS-TGNQLASLIKVLLQLRGYRVFIDVDKLYAGK-FDSSLLKNIQAAKHFILVLTPNSLDRLLNDDN  685 (832)
T ss_pred             cccCCcceEEEeecc-ccHHHHHHHHHHHHhcCceEEEehhhhhccc-ccHHHHHHHHhhheeEEEeCcchHHHHhcccc
Confidence            456789999999875 456688888889999999999997 788887 56888899999999999999998654      


Q ss_pred             --hhhHHHHHHHHHhhhhCCceeEeEE
Q 005191           74 --KWCLDELVKILKCHKKNIQLVIPIF   98 (709)
Q Consensus        74 --~wc~~El~~~~~~~~~~~~~vlPvf   98 (709)
                        .|...|+.-+++|++.    |||||
T Consensus       686 CeDWVHKEl~~Afe~~KN----IiPI~  708 (832)
T KOG3678|consen  686 CEDWVHKELKCAFEHQKN----IIPIF  708 (832)
T ss_pred             HHHHHHHHHHHHHHhcCC----eeeee
Confidence              6888899999888754    99998

>PTZ00202 tuzin; Provisional

Probab=98.40  E-value=1.2e-05  Score=86.34  Aligned_cols=166  Identities=15%  Similarity=0.105  Sum_probs=101.4

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccC-CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGL-PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      ..|.++..|+||+.++..|...|...+ ...+++.|+|++|+|||||++.+.....    ...++.+..       +..+
T Consensus       256 ~lPa~~~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr-------g~eE  324 (550)
T PTZ00202        256 SAPAVIRQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR-------GTED  324 (550)
T ss_pred             CCCCCccCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC-------CHHH
Confidence            457788999999999999999997533 3357999999999999999999987653    225554333       4577


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHH-----c-cCceEEEecCCCChhhhhhhh---cCCCCCCCCeEEEEEcCchh
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRL-----Q-RMKVFIVLDDVNKYGQLEYFD---GGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-----~-~kr~LLVLDdv~~~~~~~~l~---~~l~~~~~gsrIIvTTR~~~  325 (709)
                      +++.++..++.... ....++...|.+.+     . +++.+||+-=-+ -+.+....   -.+.....-|+|++---.+.
T Consensus       325 lLr~LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lre-g~~l~rvyne~v~la~drr~ch~v~evples  402 (550)
T PTZ00202        325 TLRSVVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPLLVLKLRE-GSSLQRVYNEVVALACDRRLCHVVIEVPLES  402 (550)
T ss_pred             HHHHHHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecC-CCcHHHHHHHHHHHHccchhheeeeeehHhh
Confidence            89999999975322 11122444444443     2 456666663221 11111111   01111134456666443332


Q ss_pred             hhhh---cCcceEEEecCCChHHHHHHhhhcc
Q 005191          326 ILER---YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       326 v~~~---~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      +-..   ...-..|-+++++.++|.+......
T Consensus       403 lt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        403 LTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             cchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            1111   1122578899999999998876554

>PLN03025 replication factor C subunit; Provisional

Probab=98.39  E-value=7.5e-06  Score=87.61  Aligned_cols=184  Identities=15%  Similarity=0.193  Sum_probs=105.2

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      |..-..++|.+..++.|..++..+  ..+.+.++|++|+||||+|..+++.+.. .|...+.-.+.   ++. .+.. ..
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~--~~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~---sd~-~~~~-~v   81 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDG--NMPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNA---SDD-RGID-VV   81 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecc---ccc-ccHH-HH
Confidence            344566899988888888877643  3445779999999999999999998633 23222111111   111 1111 22


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--hhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-Cc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--QLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GT  332 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~  332 (709)
                      +..+..........            -.++.-+++||+++...  .-..+...+......+++|+++... .+.... +.
T Consensus        82 r~~i~~~~~~~~~~------------~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SR  149 (319)
T PLN03025         82 RNKIKMFAQKKVTL------------PPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSR  149 (319)
T ss_pred             HHHHHHHHhccccC------------CCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHh
Confidence            22222211100000            01345699999997532  3344443333334566777766443 222211 12


Q ss_pred             ceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      ...+++++++.++..+.+...+-....  .-..+....|++.++|..-.+
T Consensus       150 c~~i~f~~l~~~~l~~~L~~i~~~egi--~i~~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        150 CAIVRFSRLSDQEILGRLMKVVEAEKV--PYVPEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             hhcccCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHH
Confidence            257899999999999888877633221  122456788899998876443

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

Probab=98.38  E-value=2.9e-06  Score=83.85  Aligned_cols=181  Identities=20%  Similarity=0.209  Sum_probs=99.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhc---cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI---GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      |..-+.|||-+.-+..+.-++..   ..+....+.+||++|+||||||.-+++.....|.   +.. . ...+.   ..+
T Consensus        20 P~~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~s-g-~~i~k---~~d   91 (233)
T PF05496_consen   20 PKSLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK---ITS-G-PAIEK---AGD   91 (233)
T ss_dssp             -SSCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE---EEE-C-CC--S---CHH
T ss_pred             CCCHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE---ecc-c-hhhhh---HHH
Confidence            35568899999988887766653   2344678899999999999999999998776653   111 1 00010   111


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCC--------CC-----------
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRF--------GP-----------  313 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~--------~~-----------  313 (709)
                      +. .++..                    + +++-+|++|.+..  ..+-+.+.+.+.++        ++           
T Consensus        92 l~-~il~~--------------------l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~  149 (233)
T PF05496_consen   92 LA-AILTN--------------------L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPP  149 (233)
T ss_dssp             HH-HHHHT-----------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE---
T ss_pred             HH-HHHHh--------------------c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCC
Confidence            11 11111                    1 2355788899864  23333333332211        11           


Q ss_pred             CeEEEEEcCchhhhhhcC--cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhc
Q 005191          314 GSRIIVTTRDKTILERYG--THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFH  390 (709)
Q Consensus       314 gsrIIvTTR~~~v~~~~~--~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~  390 (709)
                      -+-|=.|||...+...+.  ..-+.++...+.+|-.+++.+.+..  ..-+-.++.+.+|++++.|-|--..-+-..++
T Consensus       150 FTligATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~--l~i~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  150 FTLIGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARI--LNIEIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             -EEEEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHC--TT-EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             ceEeeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHH--hCCCcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            122445788765443332  2245689999999999999877732  22334457799999999999976665555544

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.

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

Probab=98.37  E-value=5.9e-07  Score=87.77  Aligned_cols=50  Identities=24%  Similarity=0.444  Sum_probs=35.8

Q ss_pred             CccccchhhhHHHhhhhc-cCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          183 GLIGLESHVEQVRSLLAI-GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .|+||+++++++...|.. .+...+.+.|+|++|+|||+|.++++.++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            489999999999999952 33457999999999999999999999988776

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=1.7e-05  Score=90.16  Aligned_cols=192  Identities=16%  Similarity=0.100  Sum_probs=112.0

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....+||.+...+.|.+++..+. -.+.+.++|+.|+||||+|+.+++.+.....    ..     ... .+.-...+.
T Consensus        12 ktFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~~----~~-----~~p-Cg~C~sC~~   80 (702)
T PRK14960         12 RNFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCETG----VT-----STP-CEVCATCKA   80 (702)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCcC----CC-----CCC-CccCHHHHH
Confidence            445679999999999999987542 2578899999999999999999987532110    00     000 000001111


Q ss_pred             HHHHhcCCCC--CCCCCChhHHHHHHH--------ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchh-
Q 005191          259 VLSKLLGENF--DIGTPKIPQYIRDRL--------QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKT-  325 (709)
Q Consensus       259 ll~~l~~~~~--~~~~~~~~~~l~~~L--------~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~-  325 (709)
                      +...-.....  +.......+.+++.+        .++.-++|+|+++..  ...+.++..+.....+..+|++|.+.. 
T Consensus        81 I~~g~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~k  160 (702)
T PRK14960         81 VNEGRFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQK  160 (702)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHh
Confidence            1100000000  000000122222221        245668999999753  456667666655456677777776542 


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHH
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQ  383 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~  383 (709)
                      +... .+....+++.+++.++..+.+.+.+-...  .....+....|++.++|.+-.+.
T Consensus       161 Ip~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEg--I~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        161 LPITVISRCLQFTLRPLAVDEITKHLGAILEKEQ--IAADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             hhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHH
Confidence            2211 12336789999999999998887763322  12234567889999999875443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.33  E-value=4.8e-06  Score=90.78  Aligned_cols=175  Identities=19%  Similarity=0.270  Sum_probs=101.2

Q ss_pred             CCCCCccccchhhhHHHhhhhcc-----------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIG-----------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE  247 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~  247 (709)
                      .....+.|+++.++++.+.+...           -..++-+.|+|++|+|||++|+.+++.....|     +...     
T Consensus       119 ~~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~-----~~v~-----  188 (364)
T TIGR01242       119 VSYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF-----IRVV-----  188 (364)
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCE-----Eecc-----
Confidence            34457899999999998876421           12256689999999999999999999865543     1100     


Q ss_pred             ccCCHHHHHHHHHHHhcCCCCCCCCCChhH-HHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC
Q 005191          248 KCGGLVHLRNQVLSKLLGENFDIGTPKIPQ-YIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR  310 (709)
Q Consensus       248 ~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~-~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~  310 (709)
                          ...+.......         ...... .+...-...+.+|+||+++...                .+..++..+..
T Consensus       189 ----~~~l~~~~~g~---------~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~  255 (364)
T TIGR01242       189 ----GSELVRKYIGE---------GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDG  255 (364)
T ss_pred             ----hHHHHHHhhhH---------HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhC
Confidence                00111110000         000111 1122223467899999986421                12223322221


Q ss_pred             C--CCCeEEEEEcCchhhhh-----hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 F--GPGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~--~~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .  ..+..||.||.......     .......++++..+.++..++|..++.+......   .....+++.+.|..
T Consensus       256 ~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~---~~~~~la~~t~g~s  328 (364)
T TIGR01242       256 FDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED---VDLEAIAKMTEGAS  328 (364)
T ss_pred             CCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc---CCHHHHHHHcCCCC
Confidence            1  34677888887543221     1123567899999999999999887744332221   11466777777754

Many proteins may score above the trusted cutoff because an internal

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.33  E-value=4.9e-06  Score=84.50  Aligned_cols=174  Identities=16%  Similarity=0.205  Sum_probs=97.7

Q ss_pred             CCCCcc-ccchhh-hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          180 DSDGLI-GLESHV-EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       180 ~~~~~v-GR~~el-~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      ..++|+ |...+. ..+.++.. .....+.+.|+|++|+|||+||..+++.....-....++.. ..          ...
T Consensus        16 ~~d~f~~~~~~~~~~~l~~~~~-~~~~~~~~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~-~~----------~~~   83 (227)
T PRK08903         16 TFDNFVAGENAELVARLRELAA-GPVADRFFYLWGEAGSGRSHLLQALVADASYGGRNARYLDA-AS----------PLL   83 (227)
T ss_pred             hhcccccCCcHHHHHHHHHHHh-ccCCCCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEeh-HH----------hHH
Confidence            344555 554443 33444333 22345678899999999999999999876443233344431 10          000


Q ss_pred             HHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--hhhhhhcCCCCC-CCCe-EEEEEcCchhhhh-----
Q 005191          258 QVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--QLEYFDGGLDRF-GPGS-RIIVTTRDKTILE-----  328 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--~~~~l~~~l~~~-~~gs-rIIvTTR~~~v~~-----  328 (709)
                      .+                     .. ....-+||+||++...  ..+.+...+... ..+. .+|+|++......     
T Consensus        84 ~~---------------------~~-~~~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~  141 (227)
T PRK08903         84 AF---------------------DF-DPEAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLRED  141 (227)
T ss_pred             HH---------------------hh-cccCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHH
Confidence            00                     00 1123478999996432  222232222111 2333 3666666432111     


Q ss_pred             ---hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          329 ---RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       329 ---~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                         .+.....+++++++.++-..++.+.+-...  ..-.++..+.+++.+.|++..+..+...+
T Consensus       142 L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~--v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        142 LRTRLGWGLVYELKPLSDADKIAALKAAAAERG--LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence               222236889999999887777765432211  22234567888889999999888777665

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.32  E-value=6.8e-06  Score=88.50  Aligned_cols=197  Identities=13%  Similarity=0.057  Sum_probs=115.1

Q ss_pred             CCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc----ccceEEEeeecccccccCCH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK----FEGKYFMANVREESEKCGGL  252 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----f~~~~~v~~~~~~~~~~~~l  252 (709)
                      .|.....++|-+...+.+...+..+. ....+.|+|+.|+||||+|..+++.+-..    +......       .. .+-
T Consensus        18 ~P~~~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~~~-------~~-~~~   88 (351)
T PRK09112         18 SPSENTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPETLA-------DP-DPA   88 (351)
T ss_pred             CCCchhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccccC-------CC-CCC
Confidence            45667889999999999999887542 35678999999999999999999976442    1110000       00 001


Q ss_pred             HHHHHHHHHHhc-------CC-CCCC---CC---CChhHHHHHHHc-----cCceEEEecCCCC--hhhhhhhhcCCCCC
Q 005191          253 VHLRNQVLSKLL-------GE-NFDI---GT---PKIPQYIRDRLQ-----RMKVFIVLDDVNK--YGQLEYFDGGLDRF  311 (709)
Q Consensus       253 ~~l~~~ll~~l~-------~~-~~~~---~~---~~~~~~l~~~L~-----~kr~LLVLDdv~~--~~~~~~l~~~l~~~  311 (709)
                      ....+.+.....       .. ....   ..   .+.+..+.+.+.     ++.-++|+|+++.  ....+.++..+...
T Consensus        89 c~~c~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEp  168 (351)
T PRK09112         89 SPVWRQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEP  168 (351)
T ss_pred             CHHHHHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcC
Confidence            112222221100       00 0000   00   112223333332     4567999999974  44556666555543


Q ss_pred             CCCeEEEEEc-Cchhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          312 GPGSRIIVTT-RDKTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       312 ~~gsrIIvTT-R~~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ..+..+|++| +...+.... +.-..+++.+++.++..+++.......   . ...+.+..+++.++|.|.....+.
T Consensus       169 p~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~---~-~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        169 PARALFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ---G-SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             CCCceEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc---C-CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            4455554444 433333222 123689999999999999998743111   1 223457789999999998665443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.30  E-value=1.3e-05  Score=87.14  Aligned_cols=185  Identities=15%  Similarity=0.102  Sum_probs=111.2

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc----c-----------------cceE
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK----F-----------------EGKY  237 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~----f-----------------~~~~  237 (709)
                      ..-..++|.+..++.+.+.+..+. -.+.+.++|++|+|||++|+.++..+...    +                 ....
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~~   89 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDVI   89 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCEE
Confidence            445678999999999999887432 24678899999999999999999875422    1                 0011


Q ss_pred             EEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCe
Q 005191          238 FMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGS  315 (709)
Q Consensus       238 ~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gs  315 (709)
                      ++...    .. ... ...+++...+....               ..+++-++|+|+++..  ...+.++..+....+.+
T Consensus        90 ~~~~~----~~-~~~-~~~~~l~~~~~~~p---------------~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~  148 (355)
T TIGR02397        90 EIDAA----SN-NGV-DDIREILDNVKYAP---------------SSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHV  148 (355)
T ss_pred             Eeecc----cc-CCH-HHHHHHHHHHhcCc---------------ccCCceEEEEeChhhcCHHHHHHHHHHHhCCccce
Confidence            11100    00 000 11112222211000               1234558999998654  44566666655444566


Q ss_pred             EEEEEcCchh-hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          316 RIIVTTRDKT-ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       316 rIIvTTR~~~-v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      .+|++|.+.. +.... .....+++++++.++..+++...+-....  ....+.+..+++.++|.|..+.....
T Consensus       149 ~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~--~i~~~a~~~l~~~~~g~~~~a~~~le  220 (355)
T TIGR02397       149 VFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGI--KIEDEALELIARAADGSLRDALSLLD  220 (355)
T ss_pred             eEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCChHHHHHHHH
Confidence            7677765543 22222 22357889999999999988876632221  12246678899999999976655443

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.

>PRK08727 hypothetical protein; Validated

Probab=98.30  E-value=8.6e-06  Score=83.00  Aligned_cols=169  Identities=14%  Similarity=0.112  Sum_probs=96.8

Q ss_pred             CCCccccchh-hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHH
Q 005191          181 SDGLIGLESH-VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQV  259 (709)
Q Consensus       181 ~~~~vGR~~e-l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~l  259 (709)
                      .++|++.... +..+..... + .....+.|+|.+|+|||.|+..+++....+.....|+. ..+          ....+
T Consensus        18 f~~f~~~~~n~~~~~~~~~~-~-~~~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~-~~~----------~~~~~   84 (233)
T PRK08727         18 FDSYIAAPDGLLAQLQALAA-G-QSSDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP-LQA----------AAGRL   84 (233)
T ss_pred             hhhccCCcHHHHHHHHHHHh-c-cCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe-HHH----------hhhhH
Confidence            4556665543 333333322 1 22356999999999999999999998766554555654 111          11111


Q ss_pred             HHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh---hh-hhhhcCCCC-CCCCeEEEEEcCchh---------
Q 005191          260 LSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG---QL-EYFDGGLDR-FGPGSRIIVTTRDKT---------  325 (709)
Q Consensus       260 l~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~---~~-~~l~~~l~~-~~~gsrIIvTTR~~~---------  325 (709)
                      .                ..+ +.+ .+.-+|||||++...   .+ ..+...+.. ...+..||+||+...         
T Consensus        85 ~----------------~~~-~~l-~~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~d  146 (233)
T PRK08727         85 R----------------DAL-EAL-EGRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPD  146 (233)
T ss_pred             H----------------HHH-HHH-hcCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHH
Confidence            0                011 111 123489999996322   22 222222211 124667999998641         


Q ss_pred             hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +...+.....+++++++.++-.+++.+++....  -.-..+....|++.++|-.-.+
T Consensus       147 L~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~--l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        147 LRSRLAQCIRIGLPVLDDVARAAVLRERAQRRG--LALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHHhcCceEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHhCCCCHHHH
Confidence            112222345889999999999999998764322  1223456777888887665544

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.29  E-value=1.7e-05  Score=84.59  Aligned_cols=178  Identities=13%  Similarity=0.161  Sum_probs=110.4

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh-----cccceEEEeeecccccccCCHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ-----KFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-----~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      ..++|-+.-.+.+.+.+..+ .-.+...++|+.|+||||+|..+++.+..     .++....+....  ... ....+ .
T Consensus         4 ~~i~g~~~~~~~l~~~~~~~-~~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~--~~~-i~v~~-i   78 (313)
T PRK05564          4 HTIIGHENIKNRIKNSIIKN-RFSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPIN--KKS-IGVDD-I   78 (313)
T ss_pred             hhccCcHHHHHHHHHHHHcC-CCCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecccc--CCC-CCHHH-H
Confidence            45788888888888888643 23578889999999999999999986522     122222222100  010 12222 2


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCC--ChhhhhhhhcCCCCCCCCeEEEEEcCchhhh-hh-cCc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVN--KYGQLEYFDGGLDRFGPGSRIIVTTRDKTIL-ER-YGT  332 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~--~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~-~~-~~~  332 (709)
                      +++...+....               ..+++-++|+|+++  +.+.++.++..+....+++.+|++|.+.... +. .+.
T Consensus        79 r~~~~~~~~~p---------------~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SR  143 (313)
T PRK05564         79 RNIIEEVNKKP---------------YEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSR  143 (313)
T ss_pred             HHHHHHHhcCc---------------ccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhh
Confidence            22222221111               12344567777764  5667888888887767788888888765322 21 123


Q ss_pred             ceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ...+++.+++.++....+.+...   ..   ..+.++.++..++|.|.-+...
T Consensus       144 c~~~~~~~~~~~~~~~~l~~~~~---~~---~~~~~~~l~~~~~g~~~~a~~~  190 (313)
T PRK05564        144 CQIYKLNRLSKEEIEKFISYKYN---DI---KEEEKKSAIAFSDGIPGKVEKF  190 (313)
T ss_pred             ceeeeCCCcCHHHHHHHHHHHhc---CC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            36889999999999888866541   11   1234678899999998755433

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

Probab=98.29  E-value=3.2e-06  Score=77.68  Aligned_cols=113  Identities=18%  Similarity=0.273  Sum_probs=71.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc-----ccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCC-CCCCChhH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK-----FEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFD-IGTPKIPQ  277 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-----f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~-~~~~~~~~  277 (709)
                      +.+.+.|+|++|+|||+++..+++.....     -...+|+. .   ... .....+...++..++..... ....+...
T Consensus         3 ~~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~-~---~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~l~~   77 (131)
T PF13401_consen    3 SQRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN-C---PSS-RTPRDFAQEILEALGLPLKSRQTSDELRS   77 (131)
T ss_dssp             ----EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE-H---HHH-SSHHHHHHHHHHHHT-SSSSTS-HHHHHH
T ss_pred             CCcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE-e---CCC-CCHHHHHHHHHHHhCccccccCCHHHHHH
Confidence            35789999999999999999999976543     23334554 2   222 46778899999988655444 22222557


Q ss_pred             HHHHHHccCce-EEEecCCCCh---hhhhhhhcCCCCCCCCeEEEEEcCc
Q 005191          278 YIRDRLQRMKV-FIVLDDVNKY---GQLEYFDGGLDRFGPGSRIIVTTRD  323 (709)
Q Consensus       278 ~l~~~L~~kr~-LLVLDdv~~~---~~~~~l~~~l~~~~~gsrIIvTTR~  323 (709)
                      .+.+.+...+. +||+|+++..   +.++.+.....  ..+.++|+..+.
T Consensus        78 ~~~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   78 LLIDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            77777776554 9999999654   33444433322  567778777765

>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=98.29  E-value=6.2e-06  Score=76.43  Aligned_cols=122  Identities=16%  Similarity=0.227  Sum_probs=69.1

Q ss_pred             cccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhc
Q 005191          185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL  264 (709)
Q Consensus       185 vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~  264 (709)
                      +|++..++.+...+...  ..+.+.|+|++|+|||++++.+++.+.......+++. .......    ....... .. .
T Consensus         1 ~~~~~~~~~i~~~~~~~--~~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~-~~~~~~~----~~~~~~~-~~-~   71 (151)
T cd00009           1 VGQEEAIEALREALELP--PPKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN-ASDLLEG----LVVAELF-GH-F   71 (151)
T ss_pred             CchHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe-hhhhhhh----hHHHHHh-hh-h
Confidence            47888888888887642  4568889999999999999999998753323333333 2211110    0000000 00 0


Q ss_pred             CCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-----hhhhhhhcCCCCC---CCCeEEEEEcCch
Q 005191          265 GENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-----GQLEYFDGGLDRF---GPGSRIIVTTRDK  324 (709)
Q Consensus       265 ~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-----~~~~~l~~~l~~~---~~gsrIIvTTR~~  324 (709)
                               ............++.++|+||++..     ..+..+.......   ..+..+|+||...
T Consensus        72 ---------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~  130 (151)
T cd00009          72 ---------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRP  130 (151)
T ss_pred             ---------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCcc
Confidence                     0001111222456789999999853     2233333333221   3577888888765

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.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.28  E-value=1.1e-05  Score=92.29  Aligned_cols=195  Identities=15%  Similarity=0.116  Sum_probs=109.5

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....+||.+..++.|.+++..+. -.+.+.++|+.|+||||+|+.+++.+...-... +..         .+......
T Consensus        12 P~tFddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~-~~p---------Cg~C~sCr   80 (709)
T PRK08691         12 PKTFADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQH-GEP---------CGVCQSCT   80 (709)
T ss_pred             CCCHHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCC-CCC---------CcccHHHH
Confidence            3445679999999999999988532 256789999999999999999988653211000 000         00000000


Q ss_pred             HHHHHhcCCCCCC--CCCChhHHHHHHH--------ccCceEEEecCCCChh--hhhhhhcCCCCCCCCeEEEEEcCch-
Q 005191          258 QVLSKLLGENFDI--GTPKIPQYIRDRL--------QRMKVFIVLDDVNKYG--QLEYFDGGLDRFGPGSRIIVTTRDK-  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~--~~~~~~~~l~~~L--------~~kr~LLVLDdv~~~~--~~~~l~~~l~~~~~gsrIIvTTR~~-  324 (709)
                      .+...-......+  ......+.+++.+        .+++-++|||+++...  ..+.++..+......+.+|++|.+. 
T Consensus        81 ~i~~g~~~DvlEidaAs~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~  160 (709)
T PRK08691         81 QIDAGRYVDLLEIDAASNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPH  160 (709)
T ss_pred             HHhccCccceEEEeccccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCcc
Confidence            0000000000000  0000112222221        2456699999997543  3455555554434566677766544 


Q ss_pred             hhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          325 TILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       325 ~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      .+... .+.-..+.+.+++.++..+.+.+.+-...  .....+.+..|++.++|.+.-+..+
T Consensus       161 kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEg--i~id~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        161 KVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEK--IAYEPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             ccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHHhCCCHHHHHHH
Confidence            22221 11224678889999999998887763322  1223456789999999998554443

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

Probab=98.27  E-value=1.4e-05  Score=80.47  Aligned_cols=163  Identities=15%  Similarity=0.188  Sum_probs=94.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccc--eEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG--KYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD  281 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~  281 (709)
                      ....+.|+|..|+|||.|.+++++.+....+.  ++|+.           ...+...+...+...        ....+++
T Consensus        33 ~~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~-----------~~~f~~~~~~~~~~~--------~~~~~~~   93 (219)
T PF00308_consen   33 RYNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS-----------AEEFIREFADALRDG--------EIEEFKD   93 (219)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE-----------HHHHHHHHHHHHHTT--------SHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec-----------HHHHHHHHHHHHHcc--------cchhhhh
Confidence            34568899999999999999999988765443  33443           223444555544331        2344555


Q ss_pred             HHccCceEEEecCCCChh---hhh-hhhcCCCC-CCCCeEEEEEcCch-h--------hhhhcCcceEEEecCCChHHHH
Q 005191          282 RLQRMKVFIVLDDVNKYG---QLE-YFDGGLDR-FGPGSRIIVTTRDK-T--------ILERYGTHRIYEVEGLNCNEAL  347 (709)
Q Consensus       282 ~L~~kr~LLVLDdv~~~~---~~~-~l~~~l~~-~~~gsrIIvTTR~~-~--------v~~~~~~~~~~~L~~L~~~ea~  347 (709)
                      .++ .-=+|+|||++...   .|+ .+...+.. ...|.++|+|++.. .        +...+...-++++++++.++-.
T Consensus        94 ~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~  172 (219)
T PF00308_consen   94 RLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRR  172 (219)
T ss_dssp             HHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHH
T ss_pred             hhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHH
Confidence            555 34588999996432   222 22211111 13466899999554 2        1122334568999999999999


Q ss_pred             HHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhh
Q 005191          348 RLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSS  388 (709)
Q Consensus       348 ~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~  388 (709)
                      +++.+.+.....  .-.+++++-|++.+.+..-.|..+-..
T Consensus       173 ~il~~~a~~~~~--~l~~~v~~~l~~~~~~~~r~L~~~l~~  211 (219)
T PF00308_consen  173 RILQKKAKERGI--ELPEEVIEYLARRFRRDVRELEGALNR  211 (219)
T ss_dssp             HHHHHHHHHTT----S-HHHHHHHHHHTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHhCC--CCcHHHHHHHHHhhcCCHHHHHHHHHH
Confidence            999988743221  133466777777777666555544433

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.

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.27  E-value=1.1e-05  Score=94.37  Aligned_cols=190  Identities=11%  Similarity=0.036  Sum_probs=112.6

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhccc-c--eEEEeeecccccccCCHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-G--KYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~--~~~v~~~~~~~~~~~~l~~l  255 (709)
                      .....+||-+..++.|.+++..+. =.+.+.++|+.|+||||+|+.+++.+..... .  .|..+             ..
T Consensus        13 ~tFddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C-------------~s   78 (944)
T PRK14949         13 ATFEQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVC-------------SS   78 (944)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCc-------------hH
Confidence            445679999999999999887432 2456789999999999999999997643210 0  00000             00


Q ss_pred             HHHHHHHhc-----CCCCCCCCCChhHHHHHH-----HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc
Q 005191          256 RNQVLSKLL-----GENFDIGTPKIPQYIRDR-----LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD  323 (709)
Q Consensus       256 ~~~ll~~l~-----~~~~~~~~~~~~~~l~~~-----L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~  323 (709)
                      ...+.....     .........+.++.+.+.     ..++.-++|||+++.  .+..+.|+..+.......++|++|.+
T Consensus        79 C~~i~~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe  158 (944)
T PRK14949         79 CVEIAQGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTD  158 (944)
T ss_pred             HHHHhcCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCC
Confidence            000000000     000000000011111111     135667999999964  45677777776655566777666655


Q ss_pred             h-hhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          324 K-TILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       324 ~-~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      . .+... ...-..|++++|+.++..+.+.+.+-...  .....+.+..|++.++|.|--+..
T Consensus       159 ~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg--I~~edeAL~lIA~~S~Gd~R~ALn  219 (944)
T PRK14949        159 PQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ--LPFEAEALTLLAKAANGSMRDALS  219 (944)
T ss_pred             chhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            4 33322 12236899999999999998887653221  122345678899999998864433

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.23  E-value=2e-05  Score=87.07  Aligned_cols=191  Identities=14%  Similarity=0.069  Sum_probs=110.5

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|-+.-+..|..++..+. -.+.+.++|+.|+||||+|+.+++.+........  ..... .   ..    ...
T Consensus        15 ~~f~dvVGQe~iv~~L~~~i~~~r-i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~--~pCg~-C---~s----C~~   83 (484)
T PRK14956         15 QFFRDVIHQDLAIGALQNALKSGK-IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN--EPCNE-C---TS----CLE   83 (484)
T ss_pred             CCHHHHhChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc--cccCC-C---cH----HHH
Confidence            445678999999999999887542 2456899999999999999999987543211000  00000 0   00    111


Q ss_pred             HHHHhcCCCCCCC-----CCChhHHHHHH-----HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc-hh
Q 005191          259 VLSKLLGENFDIG-----TPKIPQYIRDR-----LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD-KT  325 (709)
Q Consensus       259 ll~~l~~~~~~~~-----~~~~~~~l~~~-----L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~-~~  325 (709)
                      +...........+     ..+.+..+.+.     ..++.-++|+|+++.  .+.++.++..+........+|++|.+ ..
T Consensus        84 i~~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~k  163 (484)
T PRK14956         84 ITKGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHK  163 (484)
T ss_pred             HHccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhh
Confidence            1111100000000     01111222222     234567999999974  45677777776654455555555544 33


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +.... +.-..|.+.+++.++..+.+.+.+-...  -....+....|++.++|.+--.
T Consensus       164 I~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg--i~~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        164 IPETILSRCQDFIFKKVPLSVLQDYSEKLCKIEN--VQYDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             ccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCChHHHH
Confidence            33222 2235789999999999888877763322  1223456788999999998443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.22  E-value=2.4e-05  Score=85.44  Aligned_cols=186  Identities=12%  Similarity=0.062  Sum_probs=105.1

Q ss_pred             CCccccchhhhHHHhhhhccCC--------CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLP--------DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLV  253 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~--------~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~  253 (709)
                      +.++|-+.-++.|.+.+..+.+        -.+.+.++|++|+|||++|..+++.+......  . ..        .+.-
T Consensus         5 ~~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~--~-~~--------Cg~C   73 (394)
T PRK07940          5 DDLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD--E-PG--------CGEC   73 (394)
T ss_pred             hhccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC--C-CC--------CCCC
Confidence            4578888888888888875431        25778899999999999999998865332110  0 00        0000


Q ss_pred             HHHHHHHHHhcCCCCCC--CCCC-hh---HHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEE
Q 005191          254 HLRNQVLSKLLGENFDI--GTPK-IP---QYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVT  320 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~--~~~~-~~---~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvT  320 (709)
                      ...+.+.........-.  .... .+   ..+.+.+     .+++-++|+|+++.  ....+.++..+....++..+|++
T Consensus        74 ~~C~~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~  153 (394)
T PRK07940         74 RACRTVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLC  153 (394)
T ss_pred             HHHHHHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEE
Confidence            00111100000000000  0000 11   1222222     23445888899975  33445566655544556666666


Q ss_pred             cCch-hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          321 TRDK-TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       321 TR~~-~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      |.+. .+.+.. +.-..+.+++++.++..+.+.... +   .+   .+.+..++..++|.|.....+
T Consensus       154 a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~-~---~~---~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        154 APSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD-G---VD---PETARRAARASQGHIGRARRL  213 (394)
T ss_pred             ECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhc-C---CC---HHHHHHHHHHcCCCHHHHHHH
Confidence            6554 333332 233688999999999998886432 1   11   345778899999999755444

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.22  E-value=5.6e-05  Score=86.69  Aligned_cols=199  Identities=13%  Similarity=0.099  Sum_probs=112.0

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      ...+.+||-+.-++.|.+++..+ .-.+.+.++|+.|+||||+|+.+++.+...-...  .   ........+.-...+.
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~~-rl~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~--~---~~~~~~pCg~C~~C~~   86 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQQ-RLHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDG--Q---GGITATPCGVCQACRD   86 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCccc--c---cCCCCCCCCccHHHHH
Confidence            44577999888888899988754 2356788999999999999999988653210000  0   0000000111111222


Q ss_pred             HHHHhcCCCCCCCC--CChhHHHHHHH--------ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc-hh
Q 005191          259 VLSKLLGENFDIGT--PKIPQYIRDRL--------QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD-KT  325 (709)
Q Consensus       259 ll~~l~~~~~~~~~--~~~~~~l~~~L--------~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~-~~  325 (709)
                      +...-.......+.  ....+.+++.+        .++.-++|||+++.  .+..+.++..+........+|++|.+ ..
T Consensus        87 i~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~k  166 (618)
T PRK14951         87 IDSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQK  166 (618)
T ss_pred             HHcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchh
Confidence            21100000000100  01222233322        13445899999975  44567777766654556666655544 33


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      +... .+....+++++++.++..+.+.+.+.....  ....+.+..|++.++|.+--+..+
T Consensus       167 il~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi--~ie~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        167 VPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENV--PAEPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            3322 223368899999999999988876633221  122356788899999987554433

>PRK05642 DNA replication initiation factor; Validated

Probab=98.19  E-value=2.2e-05  Score=80.04  Aligned_cols=154  Identities=18%  Similarity=0.253  Sum_probs=91.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      .+.+.|+|.+|+|||.|++.+++.+..+-..++|+.     ..      ++...                 ...+.+.+.
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~-----~~------~~~~~-----------------~~~~~~~~~   96 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP-----LA------ELLDR-----------------GPELLDNLE   96 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee-----HH------HHHhh-----------------hHHHHHhhh
Confidence            367899999999999999999987665444455655     11      11110                 011222233


Q ss_pred             cCceEEEecCCCCh---hhhhh-hhcCCCC-CCCCeEEEEEcCchhh---------hhhcCcceEEEecCCChHHHHHHh
Q 005191          285 RMKVFIVLDDVNKY---GQLEY-FDGGLDR-FGPGSRIIVTTRDKTI---------LERYGTHRIYEVEGLNCNEALRLF  350 (709)
Q Consensus       285 ~kr~LLVLDdv~~~---~~~~~-l~~~l~~-~~~gsrIIvTTR~~~v---------~~~~~~~~~~~L~~L~~~ea~~Lf  350 (709)
                      +-. +||+||+...   ..|+. +...+.. ...|..+|+|++....         ...+....++++++++.++-.+++
T Consensus        97 ~~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il  175 (234)
T PRK05642         97 QYE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRAL  175 (234)
T ss_pred             hCC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHH
Confidence            222 6889999532   23322 3322221 1346678888875421         112223467899999999999998


Q ss_pred             hhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          351 CSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       351 ~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      ..++....  -.-.+++.+-|++.+.|..-.+..+-..|
T Consensus       176 ~~ka~~~~--~~l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        176 QLRASRRG--LHLTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHHHcC--CCCCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            86653321  11224667788888887766665554444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=5.7e-05  Score=84.54  Aligned_cols=197  Identities=13%  Similarity=0.079  Sum_probs=107.1

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|.+.....|...+..+. -.+.+.++|++|+||||+|+.+++.+...-.  ....       + .+......
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~--~~~~-------p-c~~c~~c~   78 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENR--KGVE-------P-CNECRACR   78 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccC--CCCC-------C-CcccHHHH
Confidence            3445679999888888888776432 2456889999999999999999987532100  0000       0 00000000


Q ss_pred             HHHHHhcCCCCCC--C-C--CChhHHHHHH-----HccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-
Q 005191          258 QVLSKLLGENFDI--G-T--PKIPQYIRDR-----LQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~--~-~--~~~~~~l~~~-----L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-  324 (709)
                      .+...........  . .  .+....+.+.     ..+++-++|+|+++..  +..+.++..+........+|++|.+. 
T Consensus        79 ~i~~g~~~dv~el~aa~~~gid~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~  158 (472)
T PRK14962         79 SIDEGTFMDVIELDAASNRGIDEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLE  158 (472)
T ss_pred             HHhcCCCCccEEEeCcccCCHHHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChH
Confidence            0000000000000  0 0  0011112222     1245679999999643  34566666655434455555554443 


Q ss_pred             hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHHhh
Q 005191          325 TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVLGS  387 (709)
Q Consensus       325 ~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~la~  387 (709)
                      .+.... .....+++.+++.++....+.+.+....  -.-..+....|++.++|. +.++..+-.
T Consensus       159 kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~eg--i~i~~eal~~Ia~~s~GdlR~aln~Le~  221 (472)
T PRK14962        159 KVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEG--IEIDREALSFIAKRASGGLRDALTMLEQ  221 (472)
T ss_pred             hhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            332222 2336889999999999888887763322  122345678888888655 566666554

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

Probab=98.18  E-value=1.5e-05  Score=93.36  Aligned_cols=173  Identities=16%  Similarity=0.275  Sum_probs=100.2

Q ss_pred             CCCCCccccchhhh---HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          179 SDSDGLIGLESHVE---QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       179 ~~~~~~vGR~~el~---~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      ...+.|+|.+..+.   .+.+.+..  +....+.|+|++|+||||||+.+++.....|.   .+.   ...   .++..+
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~--~~~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~ln---a~~---~~i~di   93 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKA--DRVGSLILYGPPGVGKTTLARIIANHTRAHFS---SLN---AVL---AGVKDL   93 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhc--CCCceEEEECCCCCCHHHHHHHHHHHhcCcce---eeh---hhh---hhhHHH
Confidence            34466899988774   45566553  34566789999999999999999987654441   111   000   111111


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHH--ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEE--cCchh--hh
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRL--QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVT--TRDKT--IL  327 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L--~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvT--TR~~~--v~  327 (709)
                       +..+                ....+.+  .+++.+|||||++.  ..+.+.+.+.+.   .+..++|+  |.++.  +.
T Consensus        94 -r~~i----------------~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~  153 (725)
T PRK13341         94 -RAEV----------------DRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVN  153 (725)
T ss_pred             -HHHH----------------HHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhh
Confidence             1111                1111111  24567999999964  445566665443   35555553  44431  11


Q ss_pred             hh-cCcceEEEecCCChHHHHHHhhhcccc-----cCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          328 ER-YGTHRIYEVEGLNCNEALRLFCSCAFK-----ENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       328 ~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~-----~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      .. .+...++.+++|+.++...++.+.+-.     ......-..+..+.|++.+.|+.--+
T Consensus       154 ~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~R~l  214 (725)
T PRK13341        154 KALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDARSL  214 (725)
T ss_pred             hHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCHHHH
Confidence            11 112357899999999999998876531     01112233556788888888875433

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.18  E-value=5e-05  Score=85.43  Aligned_cols=193  Identities=18%  Similarity=0.124  Sum_probs=110.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhccc--ce-EEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE--GK-YFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~-~~v~~~~~~~~~~~~l~~  254 (709)
                      |.....++|-+.-+..|...+..+. -.+.+.++|++|+||||+|+.+++.+.....  .. .+..         .+...
T Consensus        17 P~~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~---------C~~C~   86 (507)
T PRK06645         17 PSNFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKT---------CEQCT   86 (507)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCC---------CCCCh
Confidence            3445678999999999888776432 2467889999999999999999987532110  00 0000         00000


Q ss_pred             HHHHHHHHhcCCCCCCC--CCChhHHHHHH--------HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEE-Ec
Q 005191          255 LRNQVLSKLLGENFDIG--TPKIPQYIRDR--------LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIV-TT  321 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~--~~~~~~~l~~~--------L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIv-TT  321 (709)
                      ....+...........+  .......+++.        +.+++-++|+|+++.  ...++.++..+....+.+.+|+ ||
T Consensus        87 ~C~~i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTt  166 (507)
T PRK06645         87 NCISFNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATT  166 (507)
T ss_pred             HHHHHhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeC
Confidence            11111100000000000  00011222221        134567899999975  4457777766665455666654 44


Q ss_pred             Cchhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          322 RDKTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       322 R~~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +...+.... +....+++.+++.++..+.+...+-....  ....+.+..|++.++|.+--+
T Consensus       167 e~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi--~ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        167 EVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENL--KTDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             ChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHH
Confidence            444444332 22357899999999999999887743221  122456778999999987544

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.18  E-value=2e-05  Score=87.90  Aligned_cols=167  Identities=14%  Similarity=0.169  Sum_probs=100.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhccc--ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFE--GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+.|+|..|+|||.|++.+++.+....+  .++++.           ...+...+...+....      +....+++.
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~-----------~~~f~~~~~~~l~~~~------~~~~~~~~~  203 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS-----------GDEFARKAVDILQKTH------KEIEQFKNE  203 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE-----------HHHHHHHHHHHHHHhh------hHHHHHHHH
Confidence            356889999999999999999997755332  223333           2234455554443210      122334444


Q ss_pred             HccCceEEEecCCCChh----hhhhhhcCCCC-CCCCeEEEEEcCch-hh--------hhhcCcceEEEecCCChHHHHH
Q 005191          283 LQRMKVFIVLDDVNKYG----QLEYFDGGLDR-FGPGSRIIVTTRDK-TI--------LERYGTHRIYEVEGLNCNEALR  348 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~~----~~~~l~~~l~~-~~~gsrIIvTTR~~-~v--------~~~~~~~~~~~L~~L~~~ea~~  348 (709)
                      +. ..-+|||||+....    ..+.+...+.. ...|..||+|+... ..        ...+...-++.+++++.++-.+
T Consensus       204 ~~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~  282 (450)
T PRK14087        204 IC-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATA  282 (450)
T ss_pred             hc-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHH
Confidence            44 34588999995321    12233222221 13455788887543 22        2223344578899999999999


Q ss_pred             HhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       349 Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      ++.+.+-.......-.++...-|++.++|.|-.+.-+...+
T Consensus       283 iL~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        283 IIKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             HHHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            99888733221113445778899999999998877665444

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=2.5e-05  Score=88.30  Aligned_cols=182  Identities=17%  Similarity=0.125  Sum_probs=108.8

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc---------------------cceE
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF---------------------EGKY  237 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---------------------~~~~  237 (709)
                      .....++|-+..++.|...+..+ .-.+.+.++|+.|+||||+|+.+++.+....                     ....
T Consensus        13 ~~f~diiGq~~~v~~L~~~i~~~-rl~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dli   91 (546)
T PRK14957         13 QSFAEVAGQQHALNSLVHALETQ-KVHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDLI   91 (546)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCceE
Confidence            44567999999999999988743 2346688999999999999999998653211                     1111


Q ss_pred             EEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHH-HHccCceEEEecCCCC--hhhhhhhhcCCCCCCCC
Q 005191          238 FMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD-RLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPG  314 (709)
Q Consensus       238 ~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~-~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~g  314 (709)
                      .+. .   ... .+... .+.++..                +.. -..+++-++|+|+++.  ....+.++..+......
T Consensus        92 eid-a---as~-~gvd~-ir~ii~~----------------~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~  149 (546)
T PRK14957         92 EID-A---ASR-TGVEE-TKEILDN----------------IQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEY  149 (546)
T ss_pred             Eee-c---ccc-cCHHH-HHHHHHH----------------HHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCC
Confidence            111 0   000 11111 1111111                110 0234567999999974  44566777666654556


Q ss_pred             eEEEEEcCc-hhhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch-HHHHH
Q 005191          315 SRIIVTTRD-KTILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL-ALQVL  385 (709)
Q Consensus       315 srIIvTTR~-~~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL-AL~~l  385 (709)
                      +.+|++|.+ ..+... .+....+++.+++.++..+.+.+.+-...  .....+....|++.++|.+- |+..+
T Consensus       150 v~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg--i~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        150 VKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN--INSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             ceEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            666654443 333322 22346889999999998888876552221  12234557788999999774 44443

>PRK09087 hypothetical protein; Validated

Probab=98.16  E-value=2.3e-05  Score=79.32  Aligned_cols=143  Identities=11%  Similarity=0.062  Sum_probs=87.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      .+.+.|+|++|+|||+|++.++....     ..|+..           ..+...+...+                    .
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-----~~~i~~-----------~~~~~~~~~~~--------------------~   87 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-----ALLIHP-----------NEIGSDAANAA--------------------A   87 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-----CEEecH-----------HHcchHHHHhh--------------------h
Confidence            46789999999999999998887532     224431           01111111111                    1


Q ss_pred             cCceEEEecCCCCh----hhhhhhhcCCCCCCCCeEEEEEcCch---------hhhhhcCcceEEEecCCChHHHHHHhh
Q 005191          285 RMKVFIVLDDVNKY----GQLEYFDGGLDRFGPGSRIIVTTRDK---------TILERYGTHRIYEVEGLNCNEALRLFC  351 (709)
Q Consensus       285 ~kr~LLVLDdv~~~----~~~~~l~~~l~~~~~gsrIIvTTR~~---------~v~~~~~~~~~~~L~~L~~~ea~~Lf~  351 (709)
                      +  -+|++||++..    +.+-.+...+.  ..|..+|+|++..         .....+....++++++++.++-.+++.
T Consensus        88 ~--~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~  163 (226)
T PRK09087         88 E--GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIF  163 (226)
T ss_pred             c--CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHH
Confidence            1  27888999532    22222222222  3466788888743         233334455789999999999999998


Q ss_pred             hcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          352 SCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       352 ~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      +.+-...  -.-.+++.+-|++.+.|..-++..+...|
T Consensus       164 ~~~~~~~--~~l~~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        164 KLFADRQ--LYVDPHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             HHHHHcC--CCCCHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            8873321  12335677888888888877776544443

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.16  E-value=2e-05  Score=90.61  Aligned_cols=194  Identities=13%  Similarity=0.102  Sum_probs=112.5

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....+||-+.-++.|.+.+..+. -.+.+.++|+.|+||||+|+.+++.+.....    ..     ... .+.....+.
T Consensus        13 ~~f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~----~~-----~~p-Cg~C~~C~~   81 (647)
T PRK07994         13 QTFAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETG----IT-----ATP-CGECDNCRE   81 (647)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccC----CC-----CCC-CCCCHHHHH
Confidence            455779999999999999887542 2466789999999999999999987543210    00     000 111111112


Q ss_pred             HHHHhcCCCC--CCC---CCChhHHHHHH-----HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-h
Q 005191          259 VLSKLLGENF--DIG---TPKIPQYIRDR-----LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-T  325 (709)
Q Consensus       259 ll~~l~~~~~--~~~---~~~~~~~l~~~-----L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~  325 (709)
                      +...-.....  +..   ..+....+.+.     ..++.-++|||+++.  ....+.++..+.......++|++|.+. .
T Consensus        82 i~~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~k  161 (647)
T PRK07994         82 IEQGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (647)
T ss_pred             HHcCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccc
Confidence            1110000000  000   00111112222     234567999999974  446677776666545566666655554 3


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      +... .+....|++.+|+.++..+.+.+.+-...  .....+....|++.++|.+--+..+
T Consensus       162 Ll~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~--i~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        162 LPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQ--IPFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             cchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            3322 22236899999999999998877652221  1123355778999999988644443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=6.2e-05  Score=84.02  Aligned_cols=191  Identities=17%  Similarity=0.169  Sum_probs=109.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....+||-+.-++.|.+.+..+. -.+.+.++|+.|+||||+|+.+++.+.......         ..+ .+.-.....
T Consensus        10 ~~f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~---------~~p-Cg~C~~C~~   78 (491)
T PRK14964         10 SSFKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPT---------SDP-CGTCHNCIS   78 (491)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCC---------CCC-ccccHHHHH
Confidence            445679999999998888887442 246889999999999999999988542211100         000 001111111


Q ss_pred             HHHHhcCCCCCCCC--CChhHHHHHH---H-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc-hh
Q 005191          259 VLSKLLGENFDIGT--PKIPQYIRDR---L-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD-KT  325 (709)
Q Consensus       259 ll~~l~~~~~~~~~--~~~~~~l~~~---L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~-~~  325 (709)
                      +..........++.  ....+.+++.   .     .++.-++|+|+++.  .+..+.++..+....+.+.+|++|.+ ..
T Consensus        79 i~~~~~~Dv~eidaas~~~vddIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~K  158 (491)
T PRK14964         79 IKNSNHPDVIEIDAASNTSVDDIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKK  158 (491)
T ss_pred             HhccCCCCEEEEecccCCCHHHHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHH
Confidence            11111000000000  0011112211   1     23556899999964  34566677666655567777666643 33


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +.... +....+++.+++.++..+.+.+.+.....  ....+.+..|++.++|.+-.+
T Consensus       159 l~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi--~i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        159 IPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENI--EHDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             HHHHHHHhheeeecccccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHH
Confidence            33322 23367899999999999998887643221  223456788999999987644

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.14  E-value=3.3e-05  Score=78.87  Aligned_cols=155  Identities=13%  Similarity=0.173  Sum_probs=90.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..+.+.|+|++|+|||+|+..+++....+-....|+. +...       .....                    .+.+.+
T Consensus        44 ~~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~-~~~~-------~~~~~--------------------~~~~~~   95 (235)
T PRK08084         44 HSGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVP-LDKR-------AWFVP--------------------EVLEGM   95 (235)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE-HHHH-------hhhhH--------------------HHHHHh
Confidence            3467899999999999999999997665433444554 1110       00000                    111111


Q ss_pred             ccCceEEEecCCCCh---hhhhh-hhcCCCC-CCCC-eEEEEEcCchh---------hhhhcCcceEEEecCCChHHHHH
Q 005191          284 QRMKVFIVLDDVNKY---GQLEY-FDGGLDR-FGPG-SRIIVTTRDKT---------ILERYGTHRIYEVEGLNCNEALR  348 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~---~~~~~-l~~~l~~-~~~g-srIIvTTR~~~---------v~~~~~~~~~~~L~~L~~~ea~~  348 (709)
                      .+ --+|+|||+...   ..|+. +...+.. ...| .++|+||+...         +...+....++++++++.++-.+
T Consensus        96 ~~-~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~  174 (235)
T PRK08084         96 EQ-LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQ  174 (235)
T ss_pred             hh-CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHH
Confidence            11 238999999542   23322 1111111 0123 47899997652         22233445789999999999999


Q ss_pred             HhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       349 Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      ++.+.+....  -.-.++...-|++.+.|..-.+..+-..+
T Consensus       175 ~l~~~a~~~~--~~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        175 ALQLRARLRG--FELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            9877663221  22335667888888888776665554443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.14  E-value=7.2e-05  Score=73.56  Aligned_cols=158  Identities=13%  Similarity=0.106  Sum_probs=93.0

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc---------------------ccceEEEeeecccccccCCH
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK---------------------FEGKYFMANVREESEKCGGL  252 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~~~v~~~~~~~~~~~~l  252 (709)
                      |.+.+..+ .-.+.+.++|+.|+|||++|+.+.+.+...                     ++...++....   .. ...
T Consensus         4 l~~~i~~~-~~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~~~~~~~~---~~-~~~   78 (188)
T TIGR00678         4 LKRALEKG-RLAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDLHRLEPEG---QS-IKV   78 (188)
T ss_pred             HHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcEEEecccc---Cc-CCH
Confidence            44444422 124788999999999999999999876432                     11111211000   00 111


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhh
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILER  329 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~  329 (709)
                       +..+++...+....               ..+.+-++|+||++.  .+..+.++..+....+.+.+|++|++. .+...
T Consensus        79 -~~i~~i~~~~~~~~---------------~~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~  142 (188)
T TIGR00678        79 -DQVRELVEFLSRTP---------------QESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPT  142 (188)
T ss_pred             -HHHHHHHHHHccCc---------------ccCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHH
Confidence             11111121111000               123566899999965  334666666666555667777777654 22222


Q ss_pred             c-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch
Q 005191          330 Y-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL  380 (709)
Q Consensus       330 ~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL  380 (709)
                      . .....+++.+++.++..+.+.+.  +   .   ..+.+..|++.++|.|.
T Consensus       143 i~sr~~~~~~~~~~~~~~~~~l~~~--g---i---~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       143 IRSRCQVLPFPPLSEEALLQWLIRQ--G---I---SEEAAELLLALAGGSPG  186 (188)
T ss_pred             HHhhcEEeeCCCCCHHHHHHHHHHc--C---C---CHHHHHHHHHHcCCCcc
Confidence            1 23368999999999999998776  1   1   13568899999999985

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.

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

Probab=98.14  E-value=3.3e-05  Score=80.14  Aligned_cols=173  Identities=18%  Similarity=0.254  Sum_probs=100.1

Q ss_pred             CCCccccchhhhH---HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          181 SDGLIGLESHVEQ---VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       181 ~~~~vGR~~el~~---L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      -...||-+..+.+   |.+++.  .+....+.+||++|+||||||+.++..-+.+-  ..|+. +........+...+++
T Consensus       137 L~dyvGQ~hlv~q~gllrs~ie--q~~ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfve-lSAt~a~t~dvR~ife  211 (554)
T KOG2028|consen  137 LDDYVGQSHLVGQDGLLRSLIE--QNRIPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVE-LSATNAKTNDVRDIFE  211 (554)
T ss_pred             HHHhcchhhhcCcchHHHHHHH--cCCCCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEE-EeccccchHHHHHHHH
Confidence            3445665544432   223333  34677888999999999999999998654432  34444 2222222123333322


Q ss_pred             HHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCC--ChhhhhhhhcCCCCCCCCeEEEE--EcCchhhhh---hc
Q 005191          258 QVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVN--KYGQLEYFDGGLDRFGPGSRIIV--TTRDKTILE---RY  330 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~--~~~~~~~l~~~l~~~~~gsrIIv--TTR~~~v~~---~~  330 (709)
                      +    ..              =...+.++|.+|++|.|.  +..|-+.+++..   .+|.-++|  ||-++...-   ..
T Consensus       212 ~----aq--------------~~~~l~krkTilFiDEiHRFNksQQD~fLP~V---E~G~I~lIGATTENPSFqln~aLl  270 (554)
T KOG2028|consen  212 Q----AQ--------------NEKSLTKRKTILFIDEIHRFNKSQQDTFLPHV---ENGDITLIGATTENPSFQLNAALL  270 (554)
T ss_pred             H----HH--------------HHHhhhcceeEEEeHHhhhhhhhhhhccccee---ccCceEEEecccCCCccchhHHHH
Confidence            2    11              112356789999999995  455666666654   45665555  676663211   12


Q ss_pred             CcceEEEecCCChHHHHHHhhhccc---ccC-----CCC---hhhHHHHHHHHHHhcCCc
Q 005191          331 GTHRIYEVEGLNCNEALRLFCSCAF---KEN-----HCP---EDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       331 ~~~~~~~L~~L~~~ea~~Lf~~~a~---~~~-----~~~---~~~~~~~~~Iv~~~gGlP  379 (709)
                      ..-.++.|++|+.++...++.+-.-   ...     -+.   .....+.+-++..|.|-.
T Consensus       271 SRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  271 SRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             hccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            2336889999999999888876321   111     111   123445666777777754

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.12  E-value=7.3e-05  Score=84.82  Aligned_cols=192  Identities=16%  Similarity=0.053  Sum_probs=107.8

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|.+..++.+.+.+..+. -.+.+.++|+.|+||||+|+.+++.+...-    |.. .. .    .+-....+
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~----~~~-~~-~----Cg~C~sCr   80 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLN----PKD-GD-C----CNSCSVCE   80 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCC----CCC-CC-C----CcccHHHH
Confidence            3455779999999999999886432 247788999999999999999998763211    100 00 0    00011111


Q ss_pred             HHHHHhcCCCCCCCC--CChhHHHH---HHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-
Q 005191          258 QVLSKLLGENFDIGT--PKIPQYIR---DRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~--~~~~~~l~---~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-  324 (709)
                      .+...........+.  ....+.++   +.+     ..++-++|+|+++.  .+....++..+......+.+|++|... 
T Consensus        81 ~i~~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~  160 (605)
T PRK05896         81 SINTNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQ  160 (605)
T ss_pred             HHHcCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChH
Confidence            111111000000000  00112222   111     12344799999965  345566666554434556666555433 


Q ss_pred             hhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          325 TILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       325 ~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      .+... .+....+++.+++.++....+...+-....  ....+.+..+++.++|.+--+
T Consensus       161 KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi--~Is~eal~~La~lS~GdlR~A  217 (605)
T PRK05896        161 KIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI--KIEDNAIDKIADLADGSLRDG  217 (605)
T ss_pred             hhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHH
Confidence            33322 223357899999999999888876633221  122355788999999977533

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.11  E-value=5.9e-05  Score=85.33  Aligned_cols=183  Identities=14%  Similarity=0.072  Sum_probs=108.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc---------------------ccce
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK---------------------FEGK  236 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------------------f~~~  236 (709)
                      |.....+||-+.-++.|.+++..+. -.+.+.++|++|+||||+|+.+++.+...                     ++..
T Consensus        12 P~~f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         12 PRCFQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            3445679999999999999997442 24677899999999999999999865321                     1111


Q ss_pred             EEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCC
Q 005191          237 YFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPG  314 (709)
Q Consensus       237 ~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~g  314 (709)
                      ..+...    .. .++..+ ++++..+...               -..++.-++|+|+++.  .+..+.++..+....+.
T Consensus        91 ~eidaa----s~-~~v~~i-R~l~~~~~~~---------------p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~  149 (509)
T PRK14958         91 FEVDAA----SR-TKVEDT-RELLDNIPYA---------------PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSH  149 (509)
T ss_pred             EEEccc----cc-CCHHHH-HHHHHHHhhc---------------cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCC
Confidence            111100    00 111111 1121111100               0123456899999975  44566666666554566


Q ss_pred             eEEEEEcCch-hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          315 SRIIVTTRDK-TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       315 srIIvTTR~~-~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      +++|++|.+. .+.... +....+++++++.++..+.+...+-....  ....+....|++.++|.+.-+..
T Consensus       150 ~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi--~~~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        150 VKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV--EFENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             eEEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHH
Confidence            7777665443 332221 12356889999999888776665532221  12234577888999998854443

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.09  E-value=6.6e-05  Score=86.23  Aligned_cols=201  Identities=15%  Similarity=0.129  Sum_probs=114.8

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|.+..++.|.+.+..+. -...+.++|+.|+||||+|+.+++.+.......-    ....... .+.-.-.+
T Consensus        20 P~~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~----~~~~~~~-cg~c~~C~   93 (598)
T PRK09111         20 PQTFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGD----GGPTIDL-CGVGEHCQ   93 (598)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCcccc----CCCcccc-CcccHHHH
Confidence            3456789999999999999987542 2567889999999999999999997643221000    0000000 01111111


Q ss_pred             HHHHHhcCCCCCCC--CCChhHHHHH---HH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEc-Cch
Q 005191          258 QVLSKLLGENFDIG--TPKIPQYIRD---RL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTT-RDK  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~~--~~~~~~~l~~---~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTT-R~~  324 (709)
                      .+............  ....++.+++   .+     ..++-++|+|+++..  ...+.|+..+....+.+.+|++| ...
T Consensus        94 ~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~  173 (598)
T PRK09111         94 AIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIR  173 (598)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChh
Confidence            12111110000000  0001222222   22     234558999999653  45666766665545667766555 433


Q ss_pred             hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          325 TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       325 ~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      .+.... +....+++.+++.++....+.+.+-...  .....+.+..|++.++|.+.-+....
T Consensus       174 kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~keg--i~i~~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        174 KVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEG--VEVEDEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            333322 2236789999999999999887763222  11223567889999999986655443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=98.08  E-value=2.3e-05  Score=86.10  Aligned_cols=173  Identities=23%  Similarity=0.330  Sum_probs=98.4

Q ss_pred             CCCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          180 DSDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      ....+.|++..++++.+.+..           +-..++-|.|+|++|+|||++|+.++++....     |+...    . 
T Consensus       129 ~~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~-----~i~v~----~-  198 (389)
T PRK03992        129 TYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT-----FIRVV----G-  198 (389)
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC-----EEEee----h-
Confidence            345788999999999887632           11235678999999999999999999976433     22200    0 


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCCCCChhHH-HHHHHccCceEEEecCCCChh------------h----hhhhhcCCCCC
Q 005191          249 CGGLVHLRNQVLSKLLGENFDIGTPKIPQY-IRDRLQRMKVFIVLDDVNKYG------------Q----LEYFDGGLDRF  311 (709)
Q Consensus       249 ~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~-l~~~L~~kr~LLVLDdv~~~~------------~----~~~l~~~l~~~  311 (709)
                          ..+    .....+.     ....... +...-...+.+|+||+++...            .    +..++..+...
T Consensus       199 ----~~l----~~~~~g~-----~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~  265 (389)
T PRK03992        199 ----SEL----VQKFIGE-----GARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGF  265 (389)
T ss_pred             ----HHH----hHhhccc-----hHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhcccc
Confidence                011    1111000     0011111 222223467899999996431            1    12222222211


Q ss_pred             --CCCeEEEEEcCchhhhhh-c----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC
Q 005191          312 --GPGSRIIVTTRDKTILER-Y----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN  378 (709)
Q Consensus       312 --~~gsrIIvTTR~~~v~~~-~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl  378 (709)
                        ..+..||.||........ .    ..+..+++++.+.++-.++|..+..+......   .....+++.+.|.
T Consensus       266 ~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~---~~~~~la~~t~g~  336 (389)
T PRK03992        266 DPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD---VDLEELAELTEGA  336 (389)
T ss_pred             CCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc---CCHHHHHHHcCCC
Confidence              235677878865432221 1    23467899999999999999887643222211   1145666777664

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=98.08  E-value=0.00019  Score=80.52  Aligned_cols=178  Identities=16%  Similarity=0.142  Sum_probs=103.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccc--eEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG--KYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+.|+|++|+|||+|++.+++.+..+++.  ..|+.           ...+...+...+...        ....+.+.
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~-----------~~~~~~~~~~~~~~~--------~~~~~~~~  208 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT-----------SEKFTNDFVNALRNN--------TMEEFKEK  208 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE-----------HHHHHHHHHHHHHcC--------cHHHHHHH
Confidence            4678999999999999999999998776533  23333           112333333333211        12334444


Q ss_pred             HccCceEEEecCCCChh----hhhhhhcCCCC-CCCCeEEEEEcCchh-h--------hhhcCcceEEEecCCChHHHHH
Q 005191          283 LQRMKVFIVLDDVNKYG----QLEYFDGGLDR-FGPGSRIIVTTRDKT-I--------LERYGTHRIYEVEGLNCNEALR  348 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~~----~~~~l~~~l~~-~~~gsrIIvTTR~~~-v--------~~~~~~~~~~~L~~L~~~ea~~  348 (709)
                      ++ +.-+|+|||++...    ..+.+...+.. ...|..+|+||.... .        ...+....++++++++.++-.+
T Consensus       209 ~~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~  287 (450)
T PRK00149        209 YR-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIA  287 (450)
T ss_pred             Hh-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHH
Confidence            44 35589999995321    11222221111 123455777776531 1        2223334678999999999999


Q ss_pred             HhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhc------CC--ChhhHHHHHHHh
Q 005191          349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFH------RK--SKPDWVNTLNNL  404 (709)
Q Consensus       349 Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~------~~--~~~ew~~~L~~L  404 (709)
                      ++.+.+-...  ....+++.+.|++.+.|..-.+.-+-..|.      ++  +.+..+..+..+
T Consensus       288 il~~~~~~~~--~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        288 ILKKKAEEEG--IDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            9998874321  223346788888888888765544333221      22  445566666654

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=98.06  E-value=7.5e-05  Score=83.24  Aligned_cols=161  Identities=14%  Similarity=0.130  Sum_probs=95.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccc--eEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG--KYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+.|+|++|+|||+|+..+++.+...++.  +.|+.           ...+...+...+...        ....+++.
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~-----------~~~f~~~~~~~~~~~--------~~~~f~~~  190 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT-----------SEKFLNDLVDSMKEG--------KLNEFREK  190 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE-----------HHHHHHHHHHHHhcc--------cHHHHHHH
Confidence            4568999999999999999999987765432  33443           123444444444221        12234444


Q ss_pred             HccCceEEEecCCCCh---hhh-hhhhcCCCC-CCCCeEEEEEcC-chhhhh--------hcCcceEEEecCCChHHHHH
Q 005191          283 LQRMKVFIVLDDVNKY---GQL-EYFDGGLDR-FGPGSRIIVTTR-DKTILE--------RYGTHRIYEVEGLNCNEALR  348 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~---~~~-~~l~~~l~~-~~~gsrIIvTTR-~~~v~~--------~~~~~~~~~L~~L~~~ea~~  348 (709)
                      ...+.-+|++||+...   ... +.+...+.. ...|..||+||. .+.-..        .+....++++++.+.+.-.+
T Consensus       191 ~~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~  270 (440)
T PRK14088        191 YRKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKK  270 (440)
T ss_pred             HHhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHH
Confidence            4445668999999632   111 222221110 123457888874 332221        22234578999999999999


Q ss_pred             HhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       349 Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ++.+.+-...  -.-..++...|++.+.|+--.+.-+-
T Consensus       271 IL~~~~~~~~--~~l~~ev~~~Ia~~~~~~~R~L~g~l  306 (440)
T PRK14088        271 IARKMLEIEH--GELPEEVLNFVAENVDDNLRRLRGAI  306 (440)
T ss_pred             HHHHHHHhcC--CCCCHHHHHHHHhccccCHHHHHHHH
Confidence            9988763221  11234667888888888765554443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=8.2e-05  Score=86.02  Aligned_cols=198  Identities=15%  Similarity=0.124  Sum_probs=112.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|-+.-++.|..++..+. -.+.+.++|+.|+||||+|+.+++.+.......-        ... .+.....+.
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~~--------~~~-c~~c~~c~~   82 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDPK--------GRP-CGTCEMCRA   82 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCCC--------CCC-CccCHHHHH
Confidence            445679999999999988887442 2467789999999999999999987632110000        000 111112222


Q ss_pred             HHHHhcCCCCCCC-----CCChhHHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-h
Q 005191          259 VLSKLLGENFDIG-----TPKIPQYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-T  325 (709)
Q Consensus       259 ll~~l~~~~~~~~-----~~~~~~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~  325 (709)
                      +............     ..+....+.+.+     ..++-++|+|+++.  .+..+.|+..+......+.+|++|.+. .
T Consensus        83 i~~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~k  162 (585)
T PRK14950         83 IAEGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHK  162 (585)
T ss_pred             HhcCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhh
Confidence            2211111000000     001111222222     23456899999964  345666666555444566666665443 3


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhh
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSS  388 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~  388 (709)
                      +.... +....+++.+++..+....+...+.....  ....+.+..|++.++|.+..+......
T Consensus       163 ll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl--~i~~eal~~La~~s~Gdlr~al~~Lek  224 (585)
T PRK14950        163 VPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGI--NLEPGALEAIARAATGSMRDAENLLQQ  224 (585)
T ss_pred             hhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            33221 22357889999999988888776633221  122356789999999999766554443

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=98.04  E-value=7.1e-05  Score=89.74  Aligned_cols=177  Identities=14%  Similarity=0.117  Sum_probs=98.6

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc------cceEEEeeecccccc---c
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF------EGKYFMANVREESEK---C  249 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~v~~~~~~~~~---~  249 (709)
                      ..-+.++||+.++..+...|...  ...-+.++|++|+||||||+.+++++....      ...+|...+......   .
T Consensus       184 ~~ld~~iGr~~ei~~~i~~l~r~--~~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~  261 (852)
T TIGR03345       184 GKIDPVLGRDDEIRQMIDILLRR--RQNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVK  261 (852)
T ss_pred             CCCCcccCCHHHHHHHHHHHhcC--CcCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccc
Confidence            44568999999999999988754  233556999999999999999999875431      122332222111000   0


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCChh-------hhh---hhhcCCCCCCCCeEEE
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNKYG-------QLE---YFDGGLDRFGPGSRII  318 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~~~-------~~~---~l~~~l~~~~~gsrII  318 (709)
                      ..+..-                   +...+.+.- .+++++|++|++....       +.+   .+.+.+.  ....++|
T Consensus       262 ge~e~~-------------------lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~--~G~l~~I  320 (852)
T TIGR03345       262 GEFENR-------------------LKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALA--RGELRTI  320 (852)
T ss_pred             hHHHHH-------------------HHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhh--CCCeEEE
Confidence            001111                   111122111 1468999999995421       111   2444433  2345666


Q ss_pred             EEcCchhhhhh-------cCcceEEEecCCChHHHHHHhhhcccc--cCCCChhhHHHHHHHHHHhcCC
Q 005191          319 VTTRDKTILER-------YGTHRIYEVEGLNCNEALRLFCSCAFK--ENHCPEDLLKHSETAAHYAKGN  378 (709)
Q Consensus       319 vTTR~~~v~~~-------~~~~~~~~L~~L~~~ea~~Lf~~~a~~--~~~~~~~~~~~~~~Iv~~~gGl  378 (709)
                      -||...+....       .....++.+++++.++..+++....-.  ....-....+....+++.+.+.
T Consensus       321 gaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       321 AATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             EecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            66665432111       112368999999999999997543311  1111112344556666666554

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=5.9e-05  Score=85.82  Aligned_cols=191  Identities=15%  Similarity=0.091  Sum_probs=106.6

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|-+.-++.|.+++..+. -.+.+.++|++|+||||+|+.+++.+......    .     ... .+.-.....
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~----~-----~~p-cg~C~~C~~   81 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGV----T-----ATP-CGVCSACLE   81 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCC----C-----CCC-CCCCHHHHH
Confidence            445678999999999999887432 24667899999999999999999875321100    0     000 000000000


Q ss_pred             HHHHhcCCC--CCCCCCChhHHHH---HHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-h
Q 005191          259 VLSKLLGEN--FDIGTPKIPQYIR---DRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-T  325 (709)
Q Consensus       259 ll~~l~~~~--~~~~~~~~~~~l~---~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-~  325 (709)
                      +...-....  .+.......+.++   +..     .+++-++|+|+++..  +..+.++..+......+.+|++|.+. .
T Consensus        82 i~~~~~~d~~ei~~~~~~~vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~k  161 (527)
T PRK14969         82 IDSGRFVDLIEVDAASNTQVDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQK  161 (527)
T ss_pred             HhcCCCCceeEeeccccCCHHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhh
Confidence            000000000  0000000111222   111     245669999999754  34666666665545566666655443 2


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +... .+....+++++++.++..+.+.+.+-...  -....+.+..|++.++|.+--+
T Consensus       162 il~tI~SRc~~~~f~~l~~~~i~~~L~~il~~eg--i~~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        162 IPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQEN--IPFDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             CchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHH
Confidence            2221 11235789999999999988876653222  1123355688899999987533

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

Probab=98.02  E-value=6.3e-05  Score=89.36  Aligned_cols=155  Identities=15%  Similarity=0.175  Sum_probs=87.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-----c-cceEEEeeecccccccCCH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-----F-EGKYFMANVREESEKCGGL  252 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-----f-~~~~~v~~~~~~~~~~~~l  252 (709)
                      ..-+.++||+.+++.+...|...  ...-+.++|++|+|||++|+.+++++...     + ...+|..+...        
T Consensus       179 ~~l~~~igr~~ei~~~~~~L~~~--~~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~--------  248 (731)
T TIGR02639       179 GKIDPLIGREDELERTIQVLCRR--KKNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS--------  248 (731)
T ss_pred             CCCCcccCcHHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH--------
Confidence            34457999999999999988754  23456799999999999999999987443     1 23344332111        


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCCh-----------hhhhhhhcCCCCCCCCeEEEEE
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNKY-----------GQLEYFDGGLDRFGPGSRIIVT  320 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~~-----------~~~~~l~~~l~~~~~gsrIIvT  320 (709)
                        +..    ..  .... ...+....+.+.+ ..++.+|++|+++..           +.-+.+.+.+.  ....++|-+
T Consensus       249 --l~a----~~--~~~g-~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~--~g~i~~Iga  317 (731)
T TIGR02639       249 --LLA----GT--KYRG-DFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALS--SGKLRCIGS  317 (731)
T ss_pred             --Hhh----hc--cccc-hHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHh--CCCeEEEEe
Confidence              110    00  0000 0000111222222 346889999999632           11233444433  123455555


Q ss_pred             cCchhhhh------h-cCcceEEEecCCChHHHHHHhhhcc
Q 005191          321 TRDKTILE------R-YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       321 TR~~~v~~------~-~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      |...+...      . ......+++++++.++..+++....
T Consensus       318 Tt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       318 TTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             cCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            55422111      1 1123578999999999999998554

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=0.00014  Score=80.20  Aligned_cols=200  Identities=14%  Similarity=0.104  Sum_probs=111.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc--ccceEEEeeecccccccCCHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK--FEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      |.....++|-+.-.+.|.+++..+. -.+.+.++|++|+||||+|..+++.+...  ++...|.......    .+.-..
T Consensus        12 P~~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~----c~~c~~   86 (397)
T PRK14955         12 PKKFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEP----CGECES   86 (397)
T ss_pred             CCcHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCC----CCCCHH
Confidence            3455679999988888888887442 24568899999999999999999876431  1111111100000    011111


Q ss_pred             HHHHHHHhcCCCCCCCC-----CChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEc-C
Q 005191          256 RNQVLSKLLGENFDIGT-----PKIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTT-R  322 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~-----~~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTT-R  322 (709)
                      .+.+.............     .+.+..+.+.+     .+++-++|+|+++..  ..++.++..+....+.+.+|++| +
T Consensus        87 c~~~~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~  166 (397)
T PRK14955         87 CRDFDAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTE  166 (397)
T ss_pred             HHHHhcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence            11111110000000000     11122222333     234568899999753  45666766666545666666555 4


Q ss_pred             chhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          323 DKTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       323 ~~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      ...+.... .....+++.+++.++..+.+...+-...  ..-..+.+..|++.++|.+--+..
T Consensus       167 ~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g--~~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        167 LHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEG--ISVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             hHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHH
Confidence            33333322 1225688999999999888877652211  123346688999999998854443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=98.01  E-value=0.00011  Score=87.39  Aligned_cols=190  Identities=13%  Similarity=0.045  Sum_probs=108.5

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....+||.+..++.|.+.+..+. -.+.+.++|+.|+||||+|+.+++.+.......         ... .+.-...+.
T Consensus        12 ~~f~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~---------~~p-Cg~C~sC~~   80 (824)
T PRK07764         12 ATFAEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPT---------STP-CGECDSCVA   80 (824)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCC---------CCC-CcccHHHHH
Confidence            445679999999999999887432 246788999999999999999998763211000         000 000000111


Q ss_pred             HHHHhcCCCC-----CC---CCCChhHHHHHH-----HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc
Q 005191          259 VLSKLLGENF-----DI---GTPKIPQYIRDR-----LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD  323 (709)
Q Consensus       259 ll~~l~~~~~-----~~---~~~~~~~~l~~~-----L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~  323 (709)
                      +... .....     +.   ...+.+..+++.     ..++.-++|||+++.  .+..+.|+..+......+.+|++|.+
T Consensus        81 ~~~g-~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~  159 (824)
T PRK07764         81 LAPG-GPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTE  159 (824)
T ss_pred             HHcC-CCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCC
Confidence            1100 00000     00   000111112222     224556889999975  44566676666655566666665543


Q ss_pred             -hhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          324 -KTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       324 -~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                       ..+...+ +....|++..++.++..+++.+.+-...  .....+....|++.++|.+..+
T Consensus       160 ~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EG--v~id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        160 PDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEG--VPVEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             hhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHH
Confidence             3444332 2346899999999999888877652222  1122345678899999988443

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.01  E-value=0.00016  Score=83.92  Aligned_cols=205  Identities=17%  Similarity=0.160  Sum_probs=109.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh--cc---cceEEEeeecccccccCCH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ--KF---EGKYFMANVREESEKCGGL  252 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f---~~~~~v~~~~~~~~~~~~l  252 (709)
                      |...+.++|++..+..+.+.+..  +....+.|+|++|+||||||+.+++....  .+   ...-|+..-.... . .+.
T Consensus       150 p~~~~~iiGqs~~~~~l~~~ia~--~~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l-~-~d~  225 (615)
T TIGR02903       150 PRAFSEIVGQERAIKALLAKVAS--PFPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTL-R-WDP  225 (615)
T ss_pred             cCcHHhceeCcHHHHHHHHHHhc--CCCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhc-c-CCH
Confidence            34456799999999988877653  34567999999999999999999875432  11   1223332111100 0 111


Q ss_pred             HHHHHH---------------HHHHhcCCC-------------C---CCCCCC--hhHHHHHHHccCceEEEecCCCC--
Q 005191          253 VHLRNQ---------------VLSKLLGEN-------------F---DIGTPK--IPQYIRDRLQRMKVFIVLDDVNK--  297 (709)
Q Consensus       253 ~~l~~~---------------ll~~l~~~~-------------~---~~~~~~--~~~~l~~~L~~kr~LLVLDdv~~--  297 (709)
                      ..+...               .+...+...             .   +....+  ....+.+.+.++++.++-|+.|.  
T Consensus       226 ~~i~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~  305 (615)
T TIGR02903       226 REVTNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDD  305 (615)
T ss_pred             HHHhHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCC
Confidence            111111               111111000             0   011111  45666777777777777665543  


Q ss_pred             hhhhhhhhcCCCCCCCCeEEEE--EcCchhhhh-hc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHH
Q 005191          298 YGQLEYFDGGLDRFGPGSRIIV--TTRDKTILE-RY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAH  373 (709)
Q Consensus       298 ~~~~~~l~~~l~~~~~gsrIIv--TTR~~~v~~-~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~  373 (709)
                      ...|+.+...+....+...+++  ||++..... .. +....+.+.+++.+|..+++.+.+-....  ....+..+.|.+
T Consensus       306 ~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~v--~ls~eal~~L~~  383 (615)
T TIGR02903       306 PNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKINV--HLAAGVEELIAR  383 (615)
T ss_pred             cccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHH
Confidence            2345555444443334444444  566543211 11 12246789999999999999887632211  112345555666


Q ss_pred             HhcCCchHHHHHhhh
Q 005191          374 YAKGNPLALQVLGSS  388 (709)
Q Consensus       374 ~~gGlPLAL~~la~~  388 (709)
                      ++..-+-++..++..
T Consensus       384 ys~~gRraln~L~~~  398 (615)
T TIGR02903       384 YTIEGRKAVNILADV  398 (615)
T ss_pred             CCCcHHHHHHHHHHH
Confidence            655446666655443

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.

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=98.00  E-value=4.5e-05  Score=79.23  Aligned_cols=130  Identities=14%  Similarity=0.179  Sum_probs=70.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc--cceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF--EGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD  281 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~  281 (709)
                      ....+.++|++|+||||+|+.+++.+...-  ....++. +.   .     ..+    .....+.        ....+++
T Consensus        41 ~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~-~~---~-----~~l----~~~~~g~--------~~~~~~~   99 (261)
T TIGR02881        41 QVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIE-VE---R-----ADL----VGEYIGH--------TAQKTRE   99 (261)
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEE-ec---H-----HHh----hhhhccc--------hHHHHHH
Confidence            356788999999999999999998753321  1112222 10   0     011    1111000        1111222


Q ss_pred             HHcc-CceEEEecCCCC----------hhhhhhhhcCCCCCCCCeEEEEEcCchhhhh------hc--CcceEEEecCCC
Q 005191          282 RLQR-MKVFIVLDDVNK----------YGQLEYFDGGLDRFGPGSRIIVTTRDKTILE------RY--GTHRIYEVEGLN  342 (709)
Q Consensus       282 ~L~~-kr~LLVLDdv~~----------~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~------~~--~~~~~~~L~~L~  342 (709)
                      .+.. ...+|++|+++.          .+..+.+...+........+|+++.....-.      ..  .....+++++++
T Consensus       100 ~~~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~  179 (261)
T TIGR02881       100 VIKKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYT  179 (261)
T ss_pred             HHHhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCC
Confidence            2211 235899999964          2244556555544444445566654332100      11  123568899999


Q ss_pred             hHHHHHHhhhcc
Q 005191          343 CNEALRLFCSCA  354 (709)
Q Consensus       343 ~~ea~~Lf~~~a  354 (709)
                      .++-.+++.+.+
T Consensus       180 ~~el~~Il~~~~  191 (261)
T TIGR02881       180 VEELMEIAERMV  191 (261)
T ss_pred             HHHHHHHHHHHH
Confidence            999999988766

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.

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=0.00013  Score=79.80  Aligned_cols=184  Identities=14%  Similarity=0.147  Sum_probs=107.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc--------ccceEEEeeeccccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK--------FEGKYFMANVREESEKC  249 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------f~~~~~v~~~~~~~~~~  249 (709)
                      |..-..++|.+..++.+.+.+..+ .-.+.+.++|++|+|||++|..+++.+...        |...++-  .... .. 
T Consensus        13 P~~~~~iig~~~~~~~l~~~i~~~-~~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~--l~~~-~~-   87 (367)
T PRK14970         13 PQTFDDVVGQSHITNTLLNAIENN-HLAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFE--LDAA-SN-   87 (367)
T ss_pred             CCcHHhcCCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEE--eccc-cC-
Confidence            344567899999999999988743 235688899999999999999998876431        1111111  1000 00 


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcC-chhh
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTR-DKTI  326 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR-~~~v  326 (709)
                      .+.. ....+...+....               ..+++-++++|+++..  ..++.+...+......+.+|++|. ...+
T Consensus        88 ~~~~-~i~~l~~~~~~~p---------------~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl  151 (367)
T PRK14970         88 NSVD-DIRNLIDQVRIPP---------------QTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKI  151 (367)
T ss_pred             CCHH-HHHHHHHHHhhcc---------------ccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccC
Confidence            1111 1112222211000               1234558999999643  345666554443334555555553 3222


Q ss_pred             hhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          327 LER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       327 ~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      ... .+...++++++++.++....+...+.....  .-..+.+..+++.++|.+-.+..
T Consensus       152 ~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~--~i~~~al~~l~~~~~gdlr~~~~  208 (367)
T PRK14970        152 IPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI--KFEDDALHIIAQKADGALRDALS  208 (367)
T ss_pred             CHHHHhcceeEecCCccHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHHHH
Confidence            222 122357899999999999888876633221  12246688888999987764433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=0.0002  Score=81.83  Aligned_cols=194  Identities=17%  Similarity=0.112  Sum_probs=110.4

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|.+..++.|.+++..+ .-.+.+.++|+.|+||||+|+.+++.+....... .        .. .+.-...+.
T Consensus        10 ~~f~eivGq~~i~~~L~~~i~~~-r~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~-~--------~p-Cg~C~~C~~   78 (584)
T PRK14952         10 ATFAEVVGQEHVTEPLSSALDAG-RINHAYLFSGPRGCGKTSSARILARSLNCAQGPT-A--------TP-CGVCESCVA   78 (584)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHHhccccCCC-C--------Cc-ccccHHHHH
Confidence            44567999999999999998753 2245678999999999999999998754211000 0        00 000001111


Q ss_pred             HHHHhcCC--C--CCC---CCCChhHHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc-
Q 005191          259 VLSKLLGE--N--FDI---GTPKIPQYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD-  323 (709)
Q Consensus       259 ll~~l~~~--~--~~~---~~~~~~~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~-  323 (709)
                      +...-+..  .  .+.   ...+.+..+.+.+     .+++-++|+|+++.  .+..+.|+..+........+|++|.+ 
T Consensus        79 i~~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~  158 (584)
T PRK14952         79 LAPNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEP  158 (584)
T ss_pred             hhcccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCCh
Confidence            11000000  0  000   0011111222221     23556899999964  45666777666655566666655543 


Q ss_pred             hhhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch-HHHHH
Q 005191          324 KTILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL-ALQVL  385 (709)
Q Consensus       324 ~~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL-AL~~l  385 (709)
                      ..+... .+....+++.+++.++..+.+.+.+-....  ....+.+..|++.++|.+- ++..+
T Consensus       159 ~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi--~i~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        159 EKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV--VVDDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             HhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            333332 223468999999999999888776633221  1223456788899999875 44443

>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments

Probab=97.96  E-value=1.2e-05  Score=73.99  Aligned_cols=88  Identities=22%  Similarity=0.385  Sum_probs=47.0

Q ss_pred             ceEEecCCcccccCchHHHHHHHHHhC-------CCce----------EEcC-CCCCCCcccHHHHHHHHhccceeEEec
Q 005191            6 YDVFLSFRGEDTRDNFLSHLVVALQEK-------KIKT----------FIDE-ELTRGDQISPALVKAIEESMISVIIFS   67 (709)
Q Consensus         6 ydvFiS~~~~D~~~~f~~~L~~~L~~~-------g~~~----------~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS   67 (709)
                      |.|||||++.|.. ...+.|.+.+...       .+..          +.+. +....+.|...|.++|..|.++||++|
T Consensus         1 ~~vFIS~~~~d~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ik~~I~~~i~~s~~~IVLig   79 (130)
T PF08937_consen    1 YKVFISYSHDDDD-WYYDQLKEWLENSYEIPRDKNFDFRFYDVSKWEPIRSRDDDSSSEYIKRKIRERIKNSSVTIVLIG   79 (130)
T ss_dssp             ----------THH--HHHHHHHHHHH-------TTSS--BT---TTT---TTS---TTTTHHHHHHHHHHTEEEEEEE--
T ss_pred             CCccccccccCcH-HHHHHHHHHhccccccccccccccCcccccccCcccCccccchHHHHHHHHHHHHhcCCEEEEEeC
Confidence            6799999999933 2677777777763       2221          1111 223345789999999999999999999


Q ss_pred             cCcccchhhHHHHHHHHHhhhhCCceeEeEE
Q 005191           68 KNYASSKWCLDELVKILKCHKKNIQLVIPIF   98 (709)
Q Consensus        68 ~~y~~S~wc~~El~~~~~~~~~~~~~vlPvf   98 (709)
                      ++-..|.|+..|+..+++    .+..|+.|.
T Consensus        80 ~~T~~s~wV~~EI~~A~~----~~~~Ii~V~  106 (130)
T PF08937_consen   80 PNTAKSKWVNWEIEYALK----KGKPIIGVY  106 (130)
T ss_dssp             TT----HHHHHHHHHHTT----T---EEEEE
T ss_pred             CCcccCcHHHHHHHHHHH----CCCCEEEEE
Confidence            999999999999998775    334577664

The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.95  E-value=0.00011  Score=81.33  Aligned_cols=160  Identities=17%  Similarity=0.184  Sum_probs=93.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhccc--ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFE--GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+.|+|++|+|||.|++.+++.+..+.+  ..+|+.           ...+...+...+...        ....+.+.
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~-----------~~~~~~~~~~~~~~~--------~~~~~~~~  196 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS-----------SEKFTNDFVNALRNN--------KMEEFKEK  196 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE-----------HHHHHHHHHHHHHcC--------CHHHHHHH
Confidence            457889999999999999999998876643  233333           112333344443221        12333444


Q ss_pred             HccCceEEEecCCCChh---h-hhhhhcCCCC-CCCCeEEEEEcCch-hhh--------hhcCcceEEEecCCChHHHHH
Q 005191          283 LQRMKVFIVLDDVNKYG---Q-LEYFDGGLDR-FGPGSRIIVTTRDK-TIL--------ERYGTHRIYEVEGLNCNEALR  348 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~~---~-~~~l~~~l~~-~~~gsrIIvTTR~~-~v~--------~~~~~~~~~~L~~L~~~ea~~  348 (709)
                      +.+ .-+|+|||++...   . -+.+...+.. ...+..+|+||... ...        ..+....++++++.+.++-.+
T Consensus       197 ~~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~  275 (405)
T TIGR00362       197 YRS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLA  275 (405)
T ss_pred             HHh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHH
Confidence            433 3488999996421   1 1222222211 12345677777542 211        122233578999999999999


Q ss_pred             HhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       349 Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ++.+.+-...  ....++....|++.+.|.+-.+.-+-
T Consensus       276 il~~~~~~~~--~~l~~e~l~~ia~~~~~~~r~l~~~l  311 (405)
T TIGR00362       276 ILQKKAEEEG--LELPDEVLEFIAKNIRSNVRELEGAL  311 (405)
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHHhcCCCHHHHHHHH
Confidence            9988874322  22234667888888888776554433

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).

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.90  E-value=0.00071  Score=76.19  Aligned_cols=190  Identities=14%  Similarity=0.046  Sum_probs=108.2

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-----ccceEEEeeecccccccCCHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-----FEGKYFMANVREESEKCGGLV  253 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-----f~~~~~v~~~~~~~~~~~~l~  253 (709)
                      .....++|-+.-++.|.+.+..+. -.+.+.++|+.|+||||+|+.++..+...     .++..-               
T Consensus        13 ~~f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c---------------   76 (486)
T PRK14953         13 KFFKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKC---------------   76 (486)
T ss_pred             CcHHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCcc---------------
Confidence            345678999999999999987542 24667889999999999999999875321     011000               


Q ss_pred             HHHHHHHH----Hhc-CCCCCCCCCChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEc
Q 005191          254 HLRNQVLS----KLL-GENFDIGTPKIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTT  321 (709)
Q Consensus       254 ~l~~~ll~----~l~-~~~~~~~~~~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTT  321 (709)
                      .-...+..    .+. .........+..+.+.+..     .+++-++|+|+++..  ...+.++..+....+...+|++|
T Consensus        77 ~nc~~i~~g~~~d~~eidaas~~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~t  156 (486)
T PRK14953         77 ENCVEIDKGSFPDLIEIDAASNRGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCT  156 (486)
T ss_pred             HHHHHHhcCCCCcEEEEeCccCCCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEE
Confidence            00000000    000 0000000000122233222     245669999999743  44566665555444455555554


Q ss_pred             -Cchhhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          322 -RDKTILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       322 -R~~~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                       +...+... ......+++.+++.++....+...+-....  ....+.+..|++.++|.+..+....
T Consensus       157 t~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi--~id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        157 TEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI--EYEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             CCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence             43333322 122357899999999999888876632221  1233567788899999876555444

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.86  E-value=0.00092  Score=73.57  Aligned_cols=223  Identities=17%  Similarity=0.111  Sum_probs=129.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccC
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRM  286 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~k  286 (709)
                      ++.|.|+-++||||+++.+.......   .+++......... ..+.+...    .                +.+.-..+
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~-~~l~d~~~----~----------------~~~~~~~~   94 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDR-IELLDLLR----A----------------YIELKERE   94 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcch-hhHHHHHH----H----------------HHHhhccC
Confidence            99999999999999997766665444   4555422211111 11111111    1                11111116


Q ss_pred             ceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhc------CcceEEEecCCChHHHHHHhhhcccccCCC
Q 005191          287 KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERY------GTHRIYEVEGLNCNEALRLFCSCAFKENHC  360 (709)
Q Consensus       287 r~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~------~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~  360 (709)
                      +.+++||.|.....|+.....+.+.++. +|++|+-+.......      +....+++-||+..|-..+-....    . 
T Consensus        95 ~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~~~~~----~-  168 (398)
T COG1373          95 KSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLKGEEI----E-  168 (398)
T ss_pred             CceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhccccc----c-
Confidence            7899999999999999888777766666 888888776443321      334678999999999887653111    0 


Q ss_pred             ChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHHhhcCCCCcHHhHHHHhh-cCCCHHHHHHHHhcccc-c
Q 005191          361 PEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGY-DELSWEEKNLFLDIACF-F  438 (709)
Q Consensus       361 ~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy-~~L~~~~k~~fl~lA~F-p  438 (709)
                      ...... .-+-.-.+||.|-++..-...-.  ..+.....+.          .++....- ... +..+.++.+++-. +
T Consensus       169 ~~~~~~-~f~~Yl~~GGfP~~v~~~~~~~~--~~~~~~~~~~----------~Di~~~~~~~~~-~~~k~i~~~l~~~~g  234 (398)
T COG1373         169 PSKLEL-LFEKYLETGGFPESVKADLSEKK--LKEYLDTILK----------RDIIERGKIENA-DLMKRILRFLASNIG  234 (398)
T ss_pred             hhHHHH-HHHHHHHhCCCcHHHhCcchhhH--HHHHHHHHHH----------HHHHHHcCcccH-HHHHHHHHHHHhhcC
Confidence            001111 22233457999988755332211  0111111111          01111111 111 3556666655554 4


Q ss_pred             cCcchhHHHHHH-hcCCchHHHHHHHHHhCCCeEEe
Q 005191          439 NGDDREHVMWIL-NDDYYSVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       439 ~~~~~~~l~~l~-~~~g~~~~~~l~~L~~rsLI~~~  473 (709)
                      ..++...+.+.+ ..+......+++.|.+.-++...
T Consensus       235 ~~~s~~~la~~l~~is~~Ti~~Yl~~le~~fll~~~  270 (398)
T COG1373         235 SPISYSSLARELKGISKDTIRKYLSYLEDAFLLFLV  270 (398)
T ss_pred             CccCHHHHHHHHhccchHHHHHHHHHHHHhhheEEe
Confidence            556899999988 45555678899999998888743

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

Probab=97.86  E-value=0.00041  Score=70.32  Aligned_cols=255  Identities=18%  Similarity=0.183  Sum_probs=144.2

Q ss_pred             CCCCCCccccchhhhHHHhhhhcc---CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIG---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      |..-..|||-++-.+.|.=.+...   ....--+.++|++|.||||||.-+++.+..++..    . .+..-++..+   
T Consensus        22 P~~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k~----t-sGp~leK~gD---   93 (332)
T COG2255          22 PKTLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLKI----T-SGPALEKPGD---   93 (332)
T ss_pred             cccHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeEe----c-ccccccChhh---
Confidence            445577999988888777666532   2346788999999999999999999987655321    1 0111111011   


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--hhhhhhcCCCCC--------CCCeE--------
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--QLEYFDGGLDRF--------GPGSR--------  316 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--~~~~l~~~l~~~--------~~gsr--------  316 (709)
                       +..++..+.                     ..=+|.+|.+....  .-+-+.+++.++        ++++|        
T Consensus        94 -laaiLt~Le---------------------~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLpp  151 (332)
T COG2255          94 -LAAILTNLE---------------------EGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPP  151 (332)
T ss_pred             -HHHHHhcCC---------------------cCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCC
Confidence             112222221                     12256667774321  112222222221        23333        


Q ss_pred             ---EEEEcCchhhhhhcC--cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcC
Q 005191          317 ---IIVTTRDKTILERYG--THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHR  391 (709)
Q Consensus       317 ---IIvTTR~~~v~~~~~--~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~  391 (709)
                         |=-|||...+...+.  ..-+.+++-.+.+|-.+...+.+..  -.-+-.++.+.+|+++..|-|--..-+.+..++
T Consensus       152 FTLIGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~--l~i~i~~~~a~eIA~rSRGTPRIAnRLLrRVRD  229 (332)
T COG2255         152 FTLIGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKI--LGIEIDEEAALEIARRSRGTPRIANRLLRRVRD  229 (332)
T ss_pred             eeEeeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHH--hCCCCChHHHHHHHHhccCCcHHHHHHHHHHHH
Confidence               335888764433221  2246788888999999998887722  112233466899999999999765555554432


Q ss_pred             C---------ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccccc--cCcchhHHHHHHhcCCchHHHH
Q 005191          392 K---------SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFF--NGDDREHVMWILNDDYYSVQYG  460 (709)
Q Consensus       392 ~---------~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp--~~~~~~~l~~l~~~~g~~~~~~  460 (709)
                      .         +..--..            ....|..-=..|+.-.+..+..+.-.+  ++...+.+......+....++.
T Consensus       230 fa~V~~~~~I~~~ia~~------------aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~~lge~~~TiEdv  297 (332)
T COG2255         230 FAQVKGDGDIDRDIADK------------ALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAAALGEDRDTIEDV  297 (332)
T ss_pred             HHHHhcCCcccHHHHHH------------HHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHHHhcCchhHHHHH
Confidence            0         0011111            222333333456665566655554433  3346777777776665556655


Q ss_pred             HHH-HHhCCCeEEe-CCE
Q 005191          461 LNV-LVNKSLIKIS-YNK  476 (709)
Q Consensus       461 l~~-L~~rsLI~~~-~~~  476 (709)
                      ++. |++.++|+.. .|+
T Consensus       298 ~EPyLiq~gfi~RTpRGR  315 (332)
T COG2255         298 IEPYLIQQGFIQRTPRGR  315 (332)
T ss_pred             HhHHHHHhchhhhCCCcc
Confidence            554 8899999877 444

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.86  E-value=0.0003  Score=80.31  Aligned_cols=198  Identities=12%  Similarity=0.089  Sum_probs=111.8

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|-+..++.|.+.+..+ .-.+.+.++|+.|+||||+|+.+++.+......    .     ... .+.-...+.
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~~-ri~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~----~-----~~p-Cg~C~sC~~   81 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQEN-RVAPAYLFSGTRGVGKTTIARIFAKALNCETAP----T-----GEP-CNTCEQCRK   81 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHhccccCCC----C-----CCC-CcccHHHHH
Confidence            34567899888888888888743 125788899999999999999999875321100    0     000 000011111


Q ss_pred             HHHHhcCCCCCCC---C--CChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCc-hh
Q 005191          259 VLSKLLGENFDIG---T--PKIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRD-KT  325 (709)
Q Consensus       259 ll~~l~~~~~~~~---~--~~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~-~~  325 (709)
                      +..........+.   .  .+..+.+.+.+     .+++-++|+|+++..  ...+.|+..+........+|++|.+ ..
T Consensus        82 i~~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~k  161 (624)
T PRK14959         82 VTQGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHK  161 (624)
T ss_pred             HhcCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhh
Confidence            1111000000000   0  00111222222     345679999999653  4566676666543455666665554 33


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc-hHHHHHhhhh
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP-LALQVLGSSF  389 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP-LAL~~la~~L  389 (709)
                      +.... +....+++++++.++..+.+...+....  .....+.+..|++.++|.+ .|+..+...+
T Consensus       162 ll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~eg--i~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        162 FPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREG--VDYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             hhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            33221 2235789999999999988877653322  1123456788999999965 5666665443

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.86  E-value=0.00026  Score=81.53  Aligned_cols=197  Identities=14%  Similarity=0.102  Sum_probs=109.3

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc--ccceEEEeeecccccccCCHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK--FEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      .....++|-+..+..|.+.+..+ .-...+.++|+.|+||||+|+.+++.+...  .+...|.......    .+.-...
T Consensus        13 ~~f~eivGQe~i~~~L~~~i~~~-ri~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~----Cg~C~sC   87 (620)
T PRK14954         13 SKFADITAQEHITHTIQNSLRMD-RVGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEP----CGECESC   87 (620)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCC----CccCHHH
Confidence            44577999999999999888743 224668899999999999999999875331  1111111111000    1111111


Q ss_pred             HHHHHHhcCCCCCCC--C---CChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEc-Cc
Q 005191          257 NQVLSKLLGENFDIG--T---PKIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTT-RD  323 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~--~---~~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTT-R~  323 (709)
                      +.+...........+  .   .+.+..+.+.+     .+++-++|+|+++..  ...+.|+..+....+.+.+|++| +.
T Consensus        88 ~~~~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~  167 (620)
T PRK14954         88 RDFDAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTEL  167 (620)
T ss_pred             HHHhccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCCh
Confidence            111111000000000  0   11111222222     234558899999654  34666766665544555655544 43


Q ss_pred             hhhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          324 KTILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       324 ~~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      ..+... ......+++.+++.++....+.+.+-...  ..-..+.+..|++.++|..--+
T Consensus       168 ~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~eg--i~I~~eal~~La~~s~Gdlr~a  225 (620)
T PRK14954        168 HKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEG--IQIDADALQLIARKAQGSMRDA  225 (620)
T ss_pred             hhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhCCCHHHH
Confidence            344332 22347899999999998888876553221  1123456788999999966533

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.86  E-value=0.00011  Score=88.48  Aligned_cols=151  Identities=16%  Similarity=0.181  Sum_probs=85.6

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-c-----cceEEEeeecccccccCCHHH
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-F-----EGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f-----~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      ...++||+++++.+.+.|....  .+-+.++|++|+|||++|..++.++... -     ...+|..+...          
T Consensus       178 ~~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~----------  245 (821)
T CHL00095        178 LDPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGL----------  245 (821)
T ss_pred             CCCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHH----------
Confidence            4569999999999999997542  3345699999999999999999986532 1     23344332111          


Q ss_pred             HHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCChh----------hhhhhhcCCCCCCCCeEEEEEcCc
Q 005191          255 LRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKYG----------QLEYFDGGLDRFGPGSRIIVTTRD  323 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~~----------~~~~l~~~l~~~~~gsrIIvTTR~  323 (709)
                      +.       .+.......++ +...+.+.-..++.+|++|+++..-          .-+-+.+.+.  ....++|.+|..
T Consensus       246 l~-------ag~~~~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~--rg~l~~IgaTt~  316 (821)
T CHL00095        246 LL-------AGTKYRGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALA--RGELQCIGATTL  316 (821)
T ss_pred             Hh-------ccCCCccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHh--CCCcEEEEeCCH
Confidence            10       01000000011 2222222223568999999995211          1222333332  123456666655


Q ss_pred             hhhhhh-------cCcceEEEecCCChHHHHHHhhh
Q 005191          324 KTILER-------YGTHRIYEVEGLNCNEALRLFCS  352 (709)
Q Consensus       324 ~~v~~~-------~~~~~~~~L~~L~~~ea~~Lf~~  352 (709)
                      .+....       ......+.++..+.++...++..
T Consensus       317 ~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~  352 (821)
T CHL00095        317 DEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFG  352 (821)
T ss_pred             HHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHH
Confidence            433211       11235678888999998888764

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.83  E-value=0.00024  Score=82.36  Aligned_cols=190  Identities=13%  Similarity=0.088  Sum_probs=107.1

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|-+..++.|.+.+..+ .-.+.+.++|+.|+||||+|+.+++.+-..-....+        ..    .....
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~-rl~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~--------~p----C~~C~   80 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSN-KISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLL--------EP----CQECI   80 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCC--------Cc----hhHHH
Confidence            344567899999999999988743 235677899999999999999999865321100000        00    00000


Q ss_pred             HHHH-H---hcCCCCCCCCCChhHHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEc-Cchh
Q 005191          258 QVLS-K---LLGENFDIGTPKIPQYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTT-RDKT  325 (709)
Q Consensus       258 ~ll~-~---l~~~~~~~~~~~~~~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTT-R~~~  325 (709)
                      .... .   +..........+.++.+.+.+     .+++-++|+|+++.  ...+..++..+......+.+|++| +...
T Consensus        81 ~~~~~~~Dvieidaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~K  160 (725)
T PRK07133         81 ENVNNSLDIIEMDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHK  160 (725)
T ss_pred             HhhcCCCcEEEEeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhh
Confidence            0000 0   000000000001122222222     24566899999964  346667776665444555555444 4444


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +... .+....+++.+++.++..+.+...+-...  -....+.+..+++.++|.+--+
T Consensus       161 Ll~TI~SRcq~ieF~~L~~eeI~~~L~~il~keg--I~id~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        161 IPLTILSRVQRFNFRRISEDEIVSRLEFILEKEN--ISYEKNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             hhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHH
Confidence            4332 22336889999999999988877552222  1122345778999999977533

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.82  E-value=0.00055  Score=82.71  Aligned_cols=154  Identities=11%  Similarity=0.128  Sum_probs=86.4

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc------cceEEEeeecccccccCCH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF------EGKYFMANVREESEKCGGL  252 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~v~~~~~~~~~~~~l  252 (709)
                      ..-+.++||+.+++.+...|....  ..-+.++|++|+|||++|..+++++...+      ...+|..++..        
T Consensus       170 ~~~~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~--------  239 (852)
T TIGR03346       170 GKLDPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA--------  239 (852)
T ss_pred             CCCCcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH--------
Confidence            344679999999999999987542  34456899999999999999999875431      22333321111        


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHH-c-cCceEEEecCCCChh----------hhhhhhcCCCCCCCCeEEEEE
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRL-Q-RMKVFIVLDDVNKYG----------QLEYFDGGLDRFGPGSRIIVT  320 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~-~kr~LLVLDdv~~~~----------~~~~l~~~l~~~~~gsrIIvT  320 (709)
                        +.    .   +.............+.+.+ . +++.+|++|+++...          ..+.+.+.+.  ....++|.+
T Consensus       240 --l~----a---~~~~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~--~g~i~~Iga  308 (852)
T TIGR03346       240 --LI----A---GAKYRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALA--RGELHCIGA  308 (852)
T ss_pred             --Hh----h---cchhhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhh--cCceEEEEe
Confidence              10    0   0000000001112222222 2 368999999996321          2223333332  223455555


Q ss_pred             cCchhhhhh-------cCcceEEEecCCChHHHHHHhhhc
Q 005191          321 TRDKTILER-------YGTHRIYEVEGLNCNEALRLFCSC  353 (709)
Q Consensus       321 TR~~~v~~~-------~~~~~~~~L~~L~~~ea~~Lf~~~  353 (709)
                      |.....-..       ......+.++..+.++..+++...
T Consensus       309 Tt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       309 TTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             CcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            554432110       112246789999999999988654

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.

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.81  E-value=0.00017  Score=77.13  Aligned_cols=150  Identities=16%  Similarity=0.208  Sum_probs=84.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|.+...+.+..++..+ .-..++.++|++|+|||++|+.+++.....+   ..+. ...     .... ..+
T Consensus        17 P~~~~~~~~~~~~~~~l~~~~~~~-~~~~~lll~G~~G~GKT~la~~l~~~~~~~~---~~i~-~~~-----~~~~-~i~   85 (316)
T PHA02544         17 PSTIDECILPAADKETFKSIVKKG-RIPNMLLHSPSPGTGKTTVAKALCNEVGAEV---LFVN-GSD-----CRID-FVR   85 (316)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHhcC-CCCeEEEeeCcCCCCHHHHHHHHHHHhCccc---eEec-cCc-----ccHH-HHH
Confidence            345577899999999999988743 2356787899999999999999988753221   2222 111     1111 111


Q ss_pred             HHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh---hhhhhhhcCCCCCCCCeEEEEEcCchhhh-hhc-Cc
Q 005191          258 QVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY---GQLEYFDGGLDRFGPGSRIIVTTRDKTIL-ERY-GT  332 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~---~~~~~l~~~l~~~~~gsrIIvTTR~~~v~-~~~-~~  332 (709)
                      ..+.......              .+...+-++|+|+++..   +..+.+...+.....++++|+||...... ... +.
T Consensus        86 ~~l~~~~~~~--------------~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR  151 (316)
T PHA02544         86 NRLTRFASTV--------------SLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSR  151 (316)
T ss_pred             HHHHHHHHhh--------------cccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhh
Confidence            1111110000              01134568999999754   22223333233335677888888654211 111 12


Q ss_pred             ceEEEecCCChHHHHHHhhh
Q 005191          333 HRIYEVEGLNCNEALRLFCS  352 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~  352 (709)
                      ...+.++..+.++..+++..
T Consensus       152 ~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        152 CRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             ceEEEeCCCCHHHHHHHHHH
Confidence            24667777788777766543

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.80  E-value=0.0013  Score=74.24  Aligned_cols=191  Identities=15%  Similarity=0.086  Sum_probs=109.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccc--eEEEeeecccccccCCHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEG--KYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~--~~~v~~~~~~~~~~~~l~~l  255 (709)
                      ..-..++|-+.-.+.|...+..+. -.+++.++|+.|+||||+|+.+++.+-.. ...  .|..             ...
T Consensus        11 ~~fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~-------------C~~   76 (535)
T PRK08451         11 KHFDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDT-------------CIQ   76 (535)
T ss_pred             CCHHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcc-------------cHH
Confidence            445679999988899998887442 35677899999999999999999875321 100  0000             000


Q ss_pred             HHHHHHHhcCCCCCC--CCCChhHHHHHHH--------ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc
Q 005191          256 RNQVLSKLLGENFDI--GTPKIPQYIRDRL--------QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD  323 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~--~~~~~~~~l~~~L--------~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~  323 (709)
                      ...+...........  ......+.+++..        .+++-++|+|+++.  .+..+.++..+....+.+++|++|.+
T Consensus        77 C~~~~~~~h~dv~eldaas~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd  156 (535)
T PRK08451         77 CQSALENRHIDIIEMDAASNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTD  156 (535)
T ss_pred             HHHHhhcCCCeEEEeccccccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECC
Confidence            000000000000000  0000111222211        13456899999975  44566666666554566777777765


Q ss_pred             h-hhhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          324 K-TILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       324 ~-~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      . .+... .+....+++.+++.++..+.+...+-....  ....+.+..|++.++|.+--+..+
T Consensus       157 ~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi--~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        157 PLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV--SYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             hhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCcHHHHHHH
Confidence            4 22211 122368899999999999988766633221  123456788999999988555443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.80  E-value=0.00055  Score=73.18  Aligned_cols=93  Identities=11%  Similarity=0.125  Sum_probs=61.8

Q ss_pred             ceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCCh
Q 005191          287 KVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPE  362 (709)
Q Consensus       287 r~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~  362 (709)
                      +-++|+|+++.  .+..+.++..+..-..++.+|+||.+.. +.... +.-..+.+.+++.+++.+.+.... ..     
T Consensus       107 ~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-~~-----  180 (328)
T PRK05707        107 RKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-PE-----  180 (328)
T ss_pred             CeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-cc-----
Confidence            34557799974  4566777766665456777777777653 33322 233678999999999999987653 11     


Q ss_pred             hhHHHHHHHHHHhcCCchHHHHH
Q 005191          363 DLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       363 ~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ...+.+..++..++|.|+....+
T Consensus       181 ~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             CChHHHHHHHHHcCCCHHHHHHH
Confidence            11233567788999999765544

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.80  E-value=0.00052  Score=82.66  Aligned_cols=51  Identities=20%  Similarity=0.257  Sum_probs=41.8

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..-+.++||+.+++.+...|...  ...-+.++|++|+|||+||+.++.++..
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r~--~~~n~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhcC--CcCceEEECCCCCCHHHHHHHHHHHhhc
Confidence            34467999999999999998754  2345668999999999999999998754

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.77  E-value=0.00035  Score=78.05  Aligned_cols=192  Identities=13%  Similarity=0.116  Sum_probs=105.8

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|.+..++.|.+.+..+. -.+.+.++|++|+||||+|+.+++.+...-..    .+.    .. .+.......
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~----~~~----~~-c~~c~~C~~   83 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPT----EDQ----EP-CNQCASCKE   83 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcc----cCC----CC-CcccHHHHH
Confidence            445779999999999999887432 24678899999999999999999875321000    000    00 000000000


Q ss_pred             HHHHhcCCCCCC---CC--CChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCc-hh
Q 005191          259 VLSKLLGENFDI---GT--PKIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRD-KT  325 (709)
Q Consensus       259 ll~~l~~~~~~~---~~--~~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~-~~  325 (709)
                      +...-.......   ..  .+.+..+.+.+     .+++-++|+|+++..  +..+.+...+........+|++|.+ ..
T Consensus        84 i~~~~~~d~~~i~g~~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~k  163 (451)
T PRK06305         84 ISSGTSLDVLEIDGASHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHK  163 (451)
T ss_pred             HhcCCCCceEEeeccccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHh
Confidence            000000000000   00  00111111111     245678999999643  3455566555544456666666543 33


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +.... +....+++.+++.++..+.+...+-...  -....+.+..|++.++|.+--+
T Consensus       164 l~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg--~~i~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        164 IPGTILSRCQKMHLKRIPEETIIDKLALIAKQEG--IETSREALLPIARAAQGSLRDA  219 (451)
T ss_pred             cchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHcCCCHHHH
Confidence            32221 2335789999999999888877653221  1123456788999999977533

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.77  E-value=0.00036  Score=79.39  Aligned_cols=159  Identities=14%  Similarity=0.178  Sum_probs=92.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhccc--ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFE--GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+.|+|..|+|||.|+..+++.+...+.  .+.|+.           ...+...+...+...        ....+++.
T Consensus       314 ~NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit-----------aeef~~el~~al~~~--------~~~~f~~~  374 (617)
T PRK14086        314 YNPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS-----------SEEFTNEFINSIRDG--------KGDSFRRR  374 (617)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee-----------HHHHHHHHHHHHHhc--------cHHHHHHH
Confidence            345899999999999999999998765432  233443           122333444333211        12234444


Q ss_pred             HccCceEEEecCCCCh---hhh-hhhhcCCCC-CCCCeEEEEEcCch---------hhhhhcCcceEEEecCCChHHHHH
Q 005191          283 LQRMKVFIVLDDVNKY---GQL-EYFDGGLDR-FGPGSRIIVTTRDK---------TILERYGTHRIYEVEGLNCNEALR  348 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~---~~~-~~l~~~l~~-~~~gsrIIvTTR~~---------~v~~~~~~~~~~~L~~L~~~ea~~  348 (709)
                      +.+ .=+|+|||+...   +.+ +.+...+.. ...+..|||||+..         .+...+...-+++|++.+.+.-.+
T Consensus       375 y~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~a  453 (617)
T PRK14086        375 YRE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIA  453 (617)
T ss_pred             hhc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHH
Confidence            433 357889999532   111 222222211 13356688888753         122233445688999999999999


Q ss_pred             HhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       349 Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ++.+.+-...  -....++++-|++.+.++.-.|.-+
T Consensus       454 IL~kka~~r~--l~l~~eVi~yLa~r~~rnvR~Lega  488 (617)
T PRK14086        454 ILRKKAVQEQ--LNAPPEVLEFIASRISRNIRELEGA  488 (617)
T ss_pred             HHHHHHHhcC--CCCCHHHHHHHHHhccCCHHHHHHH
Confidence            9988773322  1223466777777777665444443

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.77  E-value=0.00036  Score=77.72  Aligned_cols=153  Identities=12%  Similarity=0.100  Sum_probs=86.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      ...+.|+|++|+|||+|++.+++.+........++.     .      ..+...+...+...        ....+++.+.
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~-----~------~~f~~~~~~~l~~~--------~~~~f~~~~~  201 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVR-----S------ELFTEHLVSAIRSG--------EMQRFRQFYR  201 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee-----H------HHHHHHHHHHHhcc--------hHHHHHHHcc
Confidence            356889999999999999999998765444444554     1      12333444443211        1223444333


Q ss_pred             cCceEEEecCCCChh----hhhhhhcCCCC-CCCCeEEEEEcCch-h--------hhhhcCcceEEEecCCChHHHHHHh
Q 005191          285 RMKVFIVLDDVNKYG----QLEYFDGGLDR-FGPGSRIIVTTRDK-T--------ILERYGTHRIYEVEGLNCNEALRLF  350 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~----~~~~l~~~l~~-~~~gsrIIvTTR~~-~--------v~~~~~~~~~~~L~~L~~~ea~~Lf  350 (709)
                       ..-+|++||+....    .-+.+...+.. ...|..||+||... .        +...+....++++.+++.++-.+++
T Consensus       202 -~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL  280 (445)
T PRK12422        202 -NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFL  280 (445)
T ss_pred             -cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHH
Confidence             44588899985421    11222221110 12355788888542 2        1222333468899999999999999


Q ss_pred             hhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          351 CSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       351 ~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .+.+-...  ..-..++..-|++.+.|+-
T Consensus       281 ~~k~~~~~--~~l~~evl~~la~~~~~di  307 (445)
T PRK12422        281 ERKAEALS--IRIEETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHHcC--CCCCHHHHHHHHHhcCCCH
Confidence            87763321  1122345566666666543

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.77  E-value=0.0011  Score=76.87  Aligned_cols=198  Identities=17%  Similarity=0.139  Sum_probs=110.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|.+.....|..++..+. -.+.+.++|+.|+||||+|+.+++.+........ .      ... .+.....+.
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~-~------~~~-Cg~C~~C~~   83 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKP-T------PEP-CGKCELCRA   83 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCC-C------CCC-CcccHHHHH
Confidence            445678999999999999887542 2467889999999999999999997543210000 0      000 111112222


Q ss_pred             HHHHhcCCCCCCC--CCChhHHHHHHH--------ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-h
Q 005191          259 VLSKLLGENFDIG--TPKIPQYIRDRL--------QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-T  325 (709)
Q Consensus       259 ll~~l~~~~~~~~--~~~~~~~l~~~L--------~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-~  325 (709)
                      +............  .....+.+++.+        .+++-++|+|+++..  +..+.|+..+........+|++|.+. .
T Consensus        84 i~~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~  163 (620)
T PRK14948         84 IAAGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQR  163 (620)
T ss_pred             HhcCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhh
Confidence            2111110000000  001222222221        234568999999753  45666766665444455555555443 3


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      +.... +....+++.+++.++....+.+.+.....  ....+.+..|++.++|.+..+..+..
T Consensus       164 llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi--~is~~al~~La~~s~G~lr~A~~lLe  224 (620)
T PRK14948        164 VLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESI--EIEPEALTLVAQRSQGGLRDAESLLD  224 (620)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            33322 22357788899999888877766532211  11234578899999998865554433

>PRK06620 hypothetical protein; Validated

Probab=97.76  E-value=0.00012  Score=73.59  Aligned_cols=137  Identities=11%  Similarity=-0.009  Sum_probs=79.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR  285 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~  285 (709)
                      +.+.|+|++|+|||+|++.+++....     .++.      .. ..    ..                       +.. +
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~------~~-~~----~~-----------------------~~~-~   84 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-----YIIK------DI-FF----NE-----------------------EIL-E   84 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-----EEcc------hh-hh----ch-----------------------hHH-h
Confidence            67899999999999999987765421     2221      00 00    00                       001 1


Q ss_pred             CceEEEecCCCChhh--hhhhhcCCCCCCCCeEEEEEcCchhh-------hhhcCcceEEEecCCChHHHHHHhhhcccc
Q 005191          286 MKVFIVLDDVNKYGQ--LEYFDGGLDRFGPGSRIIVTTRDKTI-------LERYGTHRIYEVEGLNCNEALRLFCSCAFK  356 (709)
Q Consensus       286 kr~LLVLDdv~~~~~--~~~l~~~l~~~~~gsrIIvTTR~~~v-------~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~  356 (709)
                      ..-+|++||++..++  +-.+...+.  ..|..+|+|++....       ...+...-++++++++.++-.+++.+.+-.
T Consensus        85 ~~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~  162 (214)
T PRK06620         85 KYNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSI  162 (214)
T ss_pred             cCCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHH
Confidence            234788999974332  222222222  346688998875421       222233458999999999988888776632


Q ss_pred             cCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          357 ENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       357 ~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ..  -.-.+++.+-|++.+.|.--.+.-+-
T Consensus       163 ~~--l~l~~ev~~~L~~~~~~d~r~l~~~l  190 (214)
T PRK06620        163 SS--VTISRQIIDFLLVNLPREYSKIIEIL  190 (214)
T ss_pred             cC--CCCCHHHHHHHHHHccCCHHHHHHHH
Confidence            11  11234567777777777655544433

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.75  E-value=0.00014  Score=81.60  Aligned_cols=157  Identities=22%  Similarity=0.348  Sum_probs=89.0

Q ss_pred             CCCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-----cceEEEeeec
Q 005191          180 DSDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-----EGKYFMANVR  243 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-----~~~~~v~~~~  243 (709)
                      .-..+.|.+..++++.+.+..           +-...+-+.|+|++|+|||++|+.+++.+...+     ....|+. +.
T Consensus       180 ~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~-v~  258 (512)
T TIGR03689       180 TYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN-IK  258 (512)
T ss_pred             CHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe-cc
Confidence            345577899998888886532           112356789999999999999999999875542     1233332 11


Q ss_pred             ccccccCCHHHHHHHHHHHhcCCCCCCCCCChhH----HHHHH-HccCceEEEecCCCChh---------h-----hhhh
Q 005191          244 EESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQ----YIRDR-LQRMKVFIVLDDVNKYG---------Q-----LEYF  304 (709)
Q Consensus       244 ~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~----~l~~~-L~~kr~LLVLDdv~~~~---------~-----~~~l  304 (709)
                      ..            .++....+.     ......    ..++. ..+++++|+||+++...         .     +..+
T Consensus       259 ~~------------eLl~kyvGe-----te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~L  321 (512)
T TIGR03689       259 GP------------ELLNKYVGE-----TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQL  321 (512)
T ss_pred             ch------------hhcccccch-----HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHH
Confidence            10            000000000     000111    11111 12478999999996321         1     2234


Q ss_pred             hcCCCCC--CCCeEEEEEcCchhhhh-h----cCcceEEEecCCChHHHHHHhhhcc
Q 005191          305 DGGLDRF--GPGSRIIVTTRDKTILE-R----YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       305 ~~~l~~~--~~gsrIIvTTR~~~v~~-~----~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      +..+...  ..+..||.||....... .    ...+..++++..+.++..++|..+.
T Consensus       322 L~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       322 LSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             HHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            3333321  13455666665543322 1    1234678999999999999998876

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.

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

Probab=97.73  E-value=0.00029  Score=77.27  Aligned_cols=175  Identities=19%  Similarity=0.243  Sum_probs=98.0

Q ss_pred             CCCCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE  247 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~  247 (709)
                      ..-..+.|.+...++|.+.+..           +-..++-+.|+|++|+|||+||+.+++.....|   +.+.  .    
T Consensus       142 v~~~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l~~~f---i~i~--~----  212 (398)
T PTZ00454        142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATF---IRVV--G----  212 (398)
T ss_pred             CCHHHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE---EEEe--h----
Confidence            3445688998888888876531           112467899999999999999999998754332   1111  0    


Q ss_pred             ccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC
Q 005191          248 KCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR  310 (709)
Q Consensus       248 ~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~  310 (709)
                           ..+    .....+.     ... ....+.......+.+|+||+++...                .+..++..+..
T Consensus       213 -----s~l----~~k~~ge-----~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~  278 (398)
T PTZ00454        213 -----SEF----VQKYLGE-----GPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDG  278 (398)
T ss_pred             -----HHH----HHHhcch-----hHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhc
Confidence                 011    1111000     001 2222333334678999999985320                12223322221


Q ss_pred             --CCCCeEEEEEcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 --FGPGSRIIVTTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 --~~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                        ...+..||.||........     ...+..++++..+.++..++|..+..+..... .  -...++++.+.|.-
T Consensus       279 ~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~~~l~~-d--vd~~~la~~t~g~s  351 (398)
T PTZ00454        279 FDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSE-E--VDLEDFVSRPEKIS  351 (398)
T ss_pred             cCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhcCCCCc-c--cCHHHHHHHcCCCC
Confidence              1245678888876543321     12356789999999988888876653222111 1  12456666676653

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.73  E-value=0.0016  Score=74.58  Aligned_cols=195  Identities=12%  Similarity=0.051  Sum_probs=111.8

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|-+.-++.|...+..+. -.+.+.++|+.|+||||+|+.+++.+-..-....         .+ .+.-...+
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---------~p-C~~C~~C~   80 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---------MP-CGECSSCK   80 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---------CC-CccchHHH
Confidence            3445679999999999999987532 3567889999999999999999987532100000         00 00000001


Q ss_pred             HHHHHhcCCCCCCC--CCChhHHHHHH--------HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-
Q 005191          258 QVLSKLLGENFDIG--TPKIPQYIRDR--------LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~~--~~~~~~~l~~~--------L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-  324 (709)
                      .+............  .....+.+++.        ..+++-++|+|+++.  ....+.++..+....+.+.+|++|.+. 
T Consensus        81 ~i~~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~  160 (563)
T PRK06647         81 SIDNDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVH  160 (563)
T ss_pred             HHHcCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChH
Confidence            11100000000000  00011222211        134566899999965  445677777776555667776666443 


Q ss_pred             hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          325 TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       325 ~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      .+.... +....+++.+++.++..+.+.+.+.....  ....+.+..|++.++|.+-.+..+
T Consensus       161 kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi--~id~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        161 KLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI--KYEDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            332221 22357899999999998888776633221  223456788999999988544443

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

Probab=97.72  E-value=0.00015  Score=74.13  Aligned_cols=184  Identities=17%  Similarity=0.161  Sum_probs=111.6

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh--cccceEEEeeecccccccCCHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ--KFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      |.....++|-+..++.|.+.+..  ........+|++|.|||+-|..+++.+-.  -|++++--.+.+...    +..-.
T Consensus        32 Pkt~de~~gQe~vV~~L~~a~~~--~~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSder----Gisvv  105 (346)
T KOG0989|consen   32 PKTFDELAGQEHVVQVLKNALLR--RILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDER----GISVV  105 (346)
T ss_pred             CCcHHhhcchHHHHHHHHHHHhh--cCCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccc----cccch
Confidence            44567799999999999998875  35778889999999999999999987533  355555433332221    11100


Q ss_pred             HHHH--HHHhcCCCCCCCCCChhHHHHHHHccCc-eEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchhhh-hh
Q 005191          256 RNQV--LSKLLGENFDIGTPKIPQYIRDRLQRMK-VFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKTIL-ER  329 (709)
Q Consensus       256 ~~~l--l~~l~~~~~~~~~~~~~~~l~~~L~~kr-~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~-~~  329 (709)
                      ...+  ..++.........         . ..++ -++|||+++.  .+.|..+...+..+...++.|+.+...... ..
T Consensus       106 r~Kik~fakl~~~~~~~~~---------~-~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~p  175 (346)
T KOG0989|consen  106 REKIKNFAKLTVLLKRSDG---------Y-PCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRP  175 (346)
T ss_pred             hhhhcCHHHHhhccccccC---------C-CCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChH
Confidence            0000  0111000000000         0 0123 4789999975  557888887777767777766555443211 11


Q ss_pred             c-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          330 Y-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       330 ~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      . +.-..|..++|..++...-+...+-.+.  .+-..+..+.|++.++|--
T Consensus       176 i~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~--v~~d~~al~~I~~~S~GdL  224 (346)
T KOG0989|consen  176 LVSRCQKFRFKKLKDEDIVDRLEKIASKEG--VDIDDDALKLIAKISDGDL  224 (346)
T ss_pred             HHhhHHHhcCCCcchHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHcCCcH
Confidence            1 1124578899999998888877774333  2233466788999888853

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

Probab=97.71  E-value=0.0011  Score=71.57  Aligned_cols=205  Identities=14%  Similarity=0.117  Sum_probs=117.3

Q ss_pred             CCCCCccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccc--eEEEeeecccccccCCHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG--KYFMANVREESEKCGGLVH  254 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~--~~~v~~~~~~~~~~~~l~~  254 (709)
                      ..+..++||+.|+..+.+++..  ..+..+.+-|.|-+|.|||.+...++.+.......  .+++....-     .....
T Consensus       147 ~~p~~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl-----~~~~a  221 (529)
T KOG2227|consen  147 APPGTLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSL-----TEASA  221 (529)
T ss_pred             CCCCCccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccc-----cchHH
Confidence            4568899999999999999874  33456788899999999999999999877655433  355542211     22344


Q ss_pred             HHHHHHHHh-cCCCCCCCCCChhHHHHHHHcc--CceEEEecCCCChhh--hhhhhcCCCCC-CCCeEEEEEcCch----
Q 005191          255 LRNQVLSKL-LGENFDIGTPKIPQYIRDRLQR--MKVFIVLDDVNKYGQ--LEYFDGGLDRF-GPGSRIIVTTRDK----  324 (709)
Q Consensus       255 l~~~ll~~l-~~~~~~~~~~~~~~~l~~~L~~--kr~LLVLDdv~~~~~--~~~l~~~l~~~-~~gsrIIvTTR~~----  324 (709)
                      ++..+...+ ..........+....+......  ..+|+|+|..+....  -..+...+.|- -+++++|+.--..    
T Consensus       222 iF~kI~~~~~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDl  301 (529)
T KOG2227|consen  222 IFKKIFSSLLQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDL  301 (529)
T ss_pred             HHHHHHHHHHHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhH
Confidence            555555555 2221111112244444444433  368999999864321  11122222221 2566665433211    


Q ss_pred             --hhhhhc-----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          325 --TILERY-----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       325 --~v~~~~-----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                        ..+...     .....+..+|.+.++-.+++..+.-. ..........++.+++++.|.---+..+....
T Consensus       302 TdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~-~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~  372 (529)
T KOG2227|consen  302 TDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSE-ESTSIFLNAAIELCARKVAAPSGDLRKALDVC  372 (529)
T ss_pred             HHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhc-ccccccchHHHHHHHHHhccCchhHHHHHHHH
Confidence              111111     13467889999999999999988732 22222222344555556655544444444433

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.71  E-value=0.00069  Score=77.75  Aligned_cols=193  Identities=15%  Similarity=0.116  Sum_probs=108.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|.+...+.|.+.+..+. -.+.+.++|+.|+|||++|+.+++.+...-...         ..+ .+......
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~---------~~p-C~~C~~C~   80 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD---------GEP-CNECEICK   80 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC---------CCC-CCccHHHH
Confidence            3456789999999999999987542 356778899999999999999988653211000         000 00011111


Q ss_pred             HHHHHhcCCCCCCC--CCCh---hHHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEc-Cch
Q 005191          258 QVLSKLLGENFDIG--TPKI---PQYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTT-RDK  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~~--~~~~---~~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTT-R~~  324 (709)
                      .+...........+  ....   +..+.+..     .++.-++|+|+++.  ......|+..+........+|++| ...
T Consensus        81 ~i~~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~  160 (559)
T PRK05563         81 AITNGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPH  160 (559)
T ss_pred             HHhcCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChh
Confidence            11111000000000  0011   22222221     23566889999975  345666766655434455555544 333


Q ss_pred             hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHH
Q 005191          325 TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQ  383 (709)
Q Consensus       325 ~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~  383 (709)
                      .+.... +....+++.+++.++..+.+...+-....  ....+.+..|++.++|.+.-+.
T Consensus       161 ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi--~i~~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        161 KIPATILSRCQRFDFKRISVEDIVERLKYILDKEGI--EYEDEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             hCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHH
Confidence            333221 23357889999999998888776632221  1223567788889988776443

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

Probab=97.70  E-value=0.00019  Score=65.70  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             EEEEccCCCchhHHHHHHHHHhh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      |.|+|++|+|||++|+.+++.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            57999999999999999999874

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 ....

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

Probab=97.69  E-value=0.00026  Score=78.26  Aligned_cols=173  Identities=20%  Similarity=0.265  Sum_probs=97.2

Q ss_pred             CCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      -..+.|.+.+++++.+.+..           +-...+-+.|+|++|+|||++|+.+++.....|-   .+.  .      
T Consensus       182 ~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~fi---~V~--~------  250 (438)
T PTZ00361        182 YADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFL---RVV--G------  250 (438)
T ss_pred             HHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCEE---EEe--c------
Confidence            35578999999998887642           1123567889999999999999999998655431   111  0      


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC--
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR--  310 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~--  310 (709)
                      ..   +.    ....+.     ... ....+.....+.+.+|+||+++...                .+..++..+..  
T Consensus       251 se---L~----~k~~Ge-----~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~  318 (438)
T PTZ00361        251 SE---LI----QKYLGD-----GPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFD  318 (438)
T ss_pred             ch---hh----hhhcch-----HHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhc
Confidence            00   11    011000     001 1222222334578899999984211                11122222221  


Q ss_pred             CCCCeEEEEEcCchhhhhh-c----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 FGPGSRIIVTTRDKTILER-Y----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~~~-~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+..||.||........ .    .....++++..+.++..++|..+..+......   -....++..+.|.-
T Consensus       319 ~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~k~~l~~d---vdl~~la~~t~g~s  389 (438)
T PTZ00361        319 SRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAED---VDLEEFIMAKDELS  389 (438)
T ss_pred             ccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHhcCCCCcC---cCHHHHHHhcCCCC
Confidence            1245678888876543332 1    23568899999999999999877633221111   11345566665543

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.67  E-value=0.0007  Score=71.08  Aligned_cols=129  Identities=12%  Similarity=0.120  Sum_probs=71.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc--ccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK--FEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~--f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      .-+.++|++|+|||++|+.+++.+...  .....|+..    +     ..    .++..+.+..    .......+.+  
T Consensus        59 ~~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v----~-----~~----~l~~~~~g~~----~~~~~~~~~~--  119 (284)
T TIGR02880        59 LHMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSV----T-----RD----DLVGQYIGHT----APKTKEILKR--  119 (284)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEe----c-----HH----HHhHhhcccc----hHHHHHHHHH--
Confidence            358899999999999999888865432  111223320    0     01    1222221111    0001122222  


Q ss_pred             ccCceEEEecCCCCh-----------hhhhhhhcCCCCCCCCeEEEEEcCchhhhhh--c------CcceEEEecCCChH
Q 005191          284 QRMKVFIVLDDVNKY-----------GQLEYFDGGLDRFGPGSRIIVTTRDKTILER--Y------GTHRIYEVEGLNCN  344 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~-----------~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~--~------~~~~~~~L~~L~~~  344 (709)
                       -..-+|+||+++..           +..+.+...+.....+.+||+++.....-..  .      .....+++++++.+
T Consensus       120 -a~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~e  198 (284)
T TIGR02880       120 -AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEA  198 (284)
T ss_pred             -ccCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHH
Confidence             13469999999632           2234455555444456677777654321111  1      12357899999999


Q ss_pred             HHHHHhhhcc
Q 005191          345 EALRLFCSCA  354 (709)
Q Consensus       345 ea~~Lf~~~a  354 (709)
                      |-.+++...+
T Consensus       199 dl~~I~~~~l  208 (284)
T TIGR02880       199 ELLVIAGLML  208 (284)
T ss_pred             HHHHHHHHHH
Confidence            9999987766

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.

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.67  E-value=0.002  Score=68.59  Aligned_cols=194  Identities=13%  Similarity=0.071  Sum_probs=109.9

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh---------------cccceEEEeeecccc
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ---------------KFEGKYFMANVREES  246 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~---------------~f~~~~~v~~~~~~~  246 (709)
                      ..++|-+...+.+.+.+..+. -.+...++|+.|+||+++|..+++.+-.               .++...|+.......
T Consensus         4 ~~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~   82 (314)
T PRK07399          4 ANLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQ   82 (314)
T ss_pred             HHhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEecccccc
Confidence            458899999999998887541 2578999999999999999999886422               233444443210000


Q ss_pred             cccCCHHHHHHHHHHHhcCCCCCCCC--CChhHHHHHHHc-----cCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEE
Q 005191          247 EKCGGLVHLRNQVLSKLLGENFDIGT--PKIPQYIRDRLQ-----RMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRI  317 (709)
Q Consensus       247 ~~~~~l~~l~~~ll~~l~~~~~~~~~--~~~~~~l~~~L~-----~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrI  317 (709)
                      ..  ..   -...+...+........  .+.++.+.+.+.     +++-++|+|+++..  ...+.++..+.... .+.+
T Consensus        83 g~--~~---~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~f  156 (314)
T PRK07399         83 GK--LI---TASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTL  156 (314)
T ss_pred             cc--cc---chhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeE
Confidence            00  00   00000111100000000  012223333332     45668999999753  45566665555434 4455


Q ss_pred             EEEc-Cchhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          318 IVTT-RDKTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       318 IvTT-R~~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      |++| ....+.+.. +....+++.+++.++..+.+.+.....     ........++..++|.|.....+..
T Consensus       157 ILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~-----~~~~~~~~l~~~a~Gs~~~al~~l~  223 (314)
T PRK07399        157 ILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEE-----ILNINFPELLALAQGSPGAAIANIE  223 (314)
T ss_pred             EEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhccc-----cchhHHHHHHHHcCCCHHHHHHHHH
Confidence            5554 444444432 234688999999999999998764211     1111146788999999976655433

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

Probab=97.64  E-value=0.00022  Score=84.04  Aligned_cols=153  Identities=16%  Similarity=0.143  Sum_probs=85.9

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc------cceEEEeeecccccccCCHHH
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF------EGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      -+.++||+.+++++...|....  ..-+.|+|++|+|||++|+.+++++...-      +...|..          ++. 
T Consensus       185 ~~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l----------~~~-  251 (758)
T PRK11034        185 IDPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL----------DIG-  251 (758)
T ss_pred             CCcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec----------cHH-
Confidence            3569999999999999888632  23446899999999999999998754321      2222221          111 


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCCh----------hhhh-hhhcCCCCCCCCeEEEEEcC
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNKY----------GQLE-YFDGGLDRFGPGSRIIVTTR  322 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~~----------~~~~-~l~~~l~~~~~gsrIIvTTR  322 (709)
                         .++.  +..... ........+.+.+ ..++.+|+||+++..          .+.. .+.+.+.  ...-++|-+|.
T Consensus       252 ---~lla--G~~~~G-e~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~--~g~i~vIgATt  323 (758)
T PRK11034        252 ---SLLA--GTKYRG-DFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGSTT  323 (758)
T ss_pred             ---HHhc--ccchhh-hHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHh--CCCeEEEecCC
Confidence               1110  000000 0011222222222 346789999999632          1121 2333332  23345565555


Q ss_pred             chhhhhh-------cCcceEEEecCCChHHHHHHhhhcc
Q 005191          323 DKTILER-------YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       323 ~~~v~~~-------~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      .++....       ......+.+++++.++..+++....
T Consensus       324 ~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        324 YQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             hHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            4432111       1123578999999999999987543

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

Probab=97.63  E-value=0.0019  Score=64.97  Aligned_cols=55  Identities=24%  Similarity=0.387  Sum_probs=42.2

Q ss_pred             CCCCCCccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +...+.++|.+.+.+.|.+-...  ......-+.+||..|.|||+|++++.+.+...
T Consensus        23 ~~~l~~L~Gie~Qk~~l~~Nt~~Fl~G~pannvLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   23 PIRLDDLIGIERQKEALIENTEQFLQGLPANNVLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHHcCCCCcceEEecCCCCCHHHHHHHHHHHHhhc
Confidence            44567899999999988775432  12235677789999999999999999887654

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.61  E-value=0.0028  Score=73.51  Aligned_cols=182  Identities=14%  Similarity=0.131  Sum_probs=107.4

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhccc----------------------ce
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE----------------------GK  236 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~----------------------~~  236 (709)
                      .....++|-+...+.|...+..+ .-.+.+.++|+.|+||||+|+.++..+.....                      ..
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~-~l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~   92 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATN-KLAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI   92 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcC-CCCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce
Confidence            44567999999999999988743 12567889999999999999999887531110                      00


Q ss_pred             EEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCC
Q 005191          237 YFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPG  314 (709)
Q Consensus       237 ~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~g  314 (709)
                      ..+.   . ... ... +-.+.++..+....               ..+++=++|+|+++.  .+..+.|+..+......
T Consensus        93 ~~ld---~-~~~-~~v-d~Ir~li~~~~~~P---------------~~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~  151 (614)
T PRK14971         93 HELD---A-ASN-NSV-DDIRNLIEQVRIPP---------------QIGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSY  151 (614)
T ss_pred             EEec---c-ccc-CCH-HHHHHHHHHHhhCc---------------ccCCcEEEEEECcccCCHHHHHHHHHHHhCCCCC
Confidence            0000   0 000 001 11111111110000               112445889999965  34566676666554556


Q ss_pred             eEEEEEc-Cchhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          315 SRIIVTT-RDKTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       315 srIIvTT-R~~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      +.+|++| ....+.... +...++++.+++.++....+.+.+-....  ....+.+..|++.++|..--+..
T Consensus       152 tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi--~i~~~al~~La~~s~gdlr~al~  221 (614)
T PRK14971        152 AIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI--TAEPEALNVIAQKADGGMRDALS  221 (614)
T ss_pred             eEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence            6665544 444444332 23467899999999999888876533221  12235678899999997754433

>PRK08116 hypothetical protein; Validated

Probab=97.58  E-value=0.00032  Score=72.94  Aligned_cols=102  Identities=25%  Similarity=0.290  Sum_probs=57.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR  285 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~  285 (709)
                      ..+.|+|.+|+|||.||..+++.+..+...++|+.           ...++..+.......     .......+.+.+.+
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~-----------~~~ll~~i~~~~~~~-----~~~~~~~~~~~l~~  178 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN-----------FPQLLNRIKSTYKSS-----GKEDENEIIRSLVN  178 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-----------HHHHHHHHHHHHhcc-----ccccHHHHHHHhcC
Confidence            46889999999999999999998876633344443           223344443333211     11122234444554


Q ss_pred             CceEEEecCCC--Chhhh--hhhhcCCCC-CCCCeEEEEEcCch
Q 005191          286 MKVFIVLDDVN--KYGQL--EYFDGGLDR-FGPGSRIIVTTRDK  324 (709)
Q Consensus       286 kr~LLVLDdv~--~~~~~--~~l~~~l~~-~~~gsrIIvTTR~~  324 (709)
                      -. ||||||+.  ....|  +.+...+.. ...+..+|+||...
T Consensus       179 ~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        179 AD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            44 89999993  22222  222222221 13556788988654

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.57  E-value=0.0014  Score=75.60  Aligned_cols=195  Identities=13%  Similarity=0.124  Sum_probs=106.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|-+...+.|.+.+..+ .-.+.+.++|+.|+||||+|+.+++.+...-...         ... .+......
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~~-~~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~---------~~~-c~~c~~c~   80 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDTG-RVAHAFLFTGARGVGKTSTARILAKALNCEQGLT---------AEP-CNVCPPCV   80 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC-CCCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC---------CCC-CCccHHHH
Confidence            345577999999999999988743 2246778999999999999999998753210000         000 00000111


Q ss_pred             HHHHHhcCCCCCCC--CC---ChhHHHHHHH-----ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEc-Cch
Q 005191          258 QVLSKLLGENFDIG--TP---KIPQYIRDRL-----QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTT-RDK  324 (709)
Q Consensus       258 ~ll~~l~~~~~~~~--~~---~~~~~l~~~L-----~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTT-R~~  324 (709)
                      .+...-.......+  ..   +-+..+.+.+     .++.-++|+|+++..  ...+.|+..+....+.+.+|++| ...
T Consensus        81 ~i~~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~  160 (576)
T PRK14965         81 EITEGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPH  160 (576)
T ss_pred             HHhcCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChh
Confidence            11000000000000  00   0111222222     234458999999653  44566666665444566666555 434


Q ss_pred             hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc-hHHHHH
Q 005191          325 TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP-LALQVL  385 (709)
Q Consensus       325 ~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP-LAL~~l  385 (709)
                      .+.... +....+++.+++.++....+...+-...  -....+.+..|++.++|.. .++..+
T Consensus       161 kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~eg--i~i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        161 KVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEG--ISISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             hhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            443322 2235678999999998888776552222  1122456778889999876 444443

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.55  E-value=0.00015  Score=77.76  Aligned_cols=91  Identities=15%  Similarity=0.186  Sum_probs=58.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-------h
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-------I  275 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-------~  275 (709)
                      ..+..+|+|++|+||||||+.+++.+.. +|+..+|+..+++..   ....++++.+...+-....+.+...       .
T Consensus       168 kGQR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~---~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~  244 (416)
T PRK09376        168 KGQRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERP---EEVTDMQRSVKGEVVASTFDEPAERHVQVAEMV  244 (416)
T ss_pred             cCceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCch---hHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHH
Confidence            3567889999999999999999998755 689999998666532   3466677776533211111111111       0


Q ss_pred             hHHHHHH-HccCceEEEecCCCC
Q 005191          276 PQYIRDR-LQRMKVFIVLDDVNK  297 (709)
Q Consensus       276 ~~~l~~~-L~~kr~LLVLDdv~~  297 (709)
                      .+.-+.. ..+++++|++|++..
T Consensus       245 ie~Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        245 IEKAKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHHHHcCCCEEEEEEChHH
Confidence            1111111 256899999999954

>CHL00176 ftsH cell division protein; Validated

Probab=97.52  E-value=0.00071  Score=78.43  Aligned_cols=173  Identities=17%  Similarity=0.209  Sum_probs=97.1

Q ss_pred             CCCCccccchhhhHHHhhh---hcc-------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          180 DSDGLIGLESHVEQVRSLL---AIG-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L---~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      ....++|.++..+++.+.+   ...       ..-.+-+.++|++|+|||+||+.++......     |+. +   +   
T Consensus       181 ~f~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-----~i~-i---s---  248 (638)
T CHL00176        181 TFRDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-----FFS-I---S---  248 (638)
T ss_pred             CHHhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eee-c---c---
Confidence            3456888877666665554   211       1124568999999999999999998865322     221 0   0   


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC--C
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR--F  311 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~--~  311 (709)
                        ...+...    ..+    .........+.......+++|+|||++...                .+..++..+..  .
T Consensus       249 --~s~f~~~----~~g----~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~  318 (638)
T CHL00176        249 --GSEFVEM----FVG----VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKG  318 (638)
T ss_pred             --HHHHHHH----hhh----hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccC
Confidence              0011110    000    000113333444556688999999996321                13334333321  1


Q ss_pred             CCCeEEEEEcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcC
Q 005191          312 GPGSRIIVTTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKG  377 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gG  377 (709)
                      ..+..||.||........     ...+..+.++..+.++-.+++..++......   .......+++.+.|
T Consensus       319 ~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~---~d~~l~~lA~~t~G  386 (638)
T CHL00176        319 NKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS---PDVSLELIARRTPG  386 (638)
T ss_pred             CCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccc---hhHHHHHHHhcCCC
Confidence            345567777766433221     1234678899999999999998877332111   12335667777776

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.51  E-value=0.00059  Score=77.60  Aligned_cols=173  Identities=18%  Similarity=0.237  Sum_probs=93.0

Q ss_pred             CCCccccchhhhHHHhhhh---c-------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          181 SDGLIGLESHVEQVRSLLA---I-------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      -..++|.+...+++.+++.   .       +....+-+.++|++|+|||+||+.++......|     +. +   +    
T Consensus        54 ~~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~~~~~-----~~-i---~----  120 (495)
T TIGR01241        54 FKDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF-----FS-I---S----  120 (495)
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHcCCCe-----ee-c---c----
Confidence            3567787776665554432   1       122345688999999999999999998643221     11 0   0    


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCCC--C
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDRF--G  312 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~~--~  312 (709)
                       ...+.    ....+.    ........+.......+.+|+||+++...                .+..++..+...  .
T Consensus       121 -~~~~~----~~~~g~----~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~  191 (495)
T TIGR01241       121 -GSDFV----EMFVGV----GASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTN  191 (495)
T ss_pred             -HHHHH----HHHhcc----cHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCC
Confidence             01111    111000    00012333334445678999999995421                122233222211  2


Q ss_pred             CCeEEEEEcCchhhhh-----hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC
Q 005191          313 PGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN  378 (709)
Q Consensus       313 ~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl  378 (709)
                      .+..||.||.......     ....+..++++..+.++-.+++..+........   ......+++.+.|.
T Consensus       192 ~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~~~~---~~~l~~la~~t~G~  259 (495)
T TIGR01241       192 TGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAP---DVDLKAVARRTPGF  259 (495)
T ss_pred             CCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCCCCc---chhHHHHHHhCCCC
Confidence            3455666776543221     112456789999999888888877663222111   12245777777763

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.

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

Probab=97.51  E-value=0.0015  Score=67.72  Aligned_cols=200  Identities=16%  Similarity=0.101  Sum_probs=111.3

Q ss_pred             CCccccc---hhhhHHHhhhhcc-CCCceEEEEEccCCCchhHHHHHHHHHhhhcccc-----eEEEeeecccccccCCH
Q 005191          182 DGLIGLE---SHVEQVRSLLAIG-LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG-----KYFMANVREESEKCGGL  252 (709)
Q Consensus       182 ~~~vGR~---~el~~L~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~-----~~~v~~~~~~~~~~~~l  252 (709)
                      +.+||-.   .-++.|.++|... ....+.+.|+|.+|+|||++++++.+..-..++.     -++..    ......+.
T Consensus        34 ~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~v----q~P~~p~~  109 (302)
T PF05621_consen   34 DRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYV----QMPPEPDE  109 (302)
T ss_pred             CCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEE----ecCCCCCh
Confidence            3455543   2345556666543 3446789999999999999999999865433321     12222    23334778


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHcc-CceEEEecCCCCh-----hhhhhhhcCCCCCC---CCeEEEEEcC
Q 005191          253 VHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQR-MKVFIVLDDVNKY-----GQLEYFDGGLDRFG---PGSRIIVTTR  322 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~-kr~LLVLDdv~~~-----~~~~~l~~~l~~~~---~gsrIIvTTR  322 (709)
                      ..+...|+..++.......... ........++. +.=+||+|++.+.     .+-..++..+...+   .=+-|.+-|+
T Consensus       110 ~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  110 RRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             HHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence            8999999999976654443333 44445555554 4558999999642     12222222221112   2334556665


Q ss_pred             chhhhhhc-----CcceEEEecCCChH-HHHHHhhhccc--c-cCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          323 DKTILERY-----GTHRIYEVEGLNCN-EALRLFCSCAF--K-ENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       323 ~~~v~~~~-----~~~~~~~L~~L~~~-ea~~Lf~~~a~--~-~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      +..-+-..     +....+.++....+ +...|+.....  . .....-...+++..|...++|+.--+..+
T Consensus       190 ~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  190 EAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence            44221111     12245666666554 34445432211  1 11112234678899999999987555443

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

>CHL00181 cbbX CbbX; Provisional

Probab=97.50  E-value=0.0027  Score=66.72  Aligned_cols=130  Identities=13%  Similarity=0.150  Sum_probs=71.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc-c-cceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK-F-EGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f-~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+.++|++|+|||++|+.+++.+... + ...-|+. +   +     ..    .+.....+..    .......+.+ 
T Consensus        59 ~~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~-v---~-----~~----~l~~~~~g~~----~~~~~~~l~~-  120 (287)
T CHL00181         59 GLHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLT-V---T-----RD----DLVGQYIGHT----APKTKEVLKK-  120 (287)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEE-e---c-----HH----HHHHHHhccc----hHHHHHHHHH-
Confidence            3457899999999999999998865332 1 1112332 0   1     11    1222221111    0001112222 


Q ss_pred             HccCceEEEecCCCCh-----------hhhhhhhcCCCCCCCCeEEEEEcCchhhhhh--------cCcceEEEecCCCh
Q 005191          283 LQRMKVFIVLDDVNKY-----------GQLEYFDGGLDRFGPGSRIIVTTRDKTILER--------YGTHRIYEVEGLNC  343 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~-----------~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~--------~~~~~~~~L~~L~~  343 (709)
                        ...-+|+||+++..           +..+.+...+.....+.+||+++........        -.....+.+++++.
T Consensus       121 --a~ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~  198 (287)
T CHL00181        121 --AMGGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTP  198 (287)
T ss_pred             --ccCCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCH
Confidence              13459999999642           2334455544444456677777754322110        01235789999999


Q ss_pred             HHHHHHhhhcc
Q 005191          344 NEALRLFCSCA  354 (709)
Q Consensus       344 ~ea~~Lf~~~a  354 (709)
                      +|..+++...+
T Consensus       199 ~el~~I~~~~l  209 (287)
T CHL00181        199 EELLQIAKIML  209 (287)
T ss_pred             HHHHHHHHHHH
Confidence            99999987776

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

Probab=97.48  E-value=0.00021  Score=73.26  Aligned_cols=91  Identities=16%  Similarity=0.184  Sum_probs=58.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-------h
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-------I  275 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-------~  275 (709)
                      ....++|.|++|+|||||++.+++.+.. +|+..+|+..+.+.   ..+..++++.+...+-....+.+...       .
T Consensus        15 ~Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er---~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~   91 (249)
T cd01128          15 KGQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDER---PEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMV   91 (249)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCC---CccHHHHHHHhccEEEEecCCCCHHHHHHHHHHH
Confidence            3568899999999999999999997654 58888888755442   14577787777443311111111111       1


Q ss_pred             hHHHHHH-HccCceEEEecCCCC
Q 005191          276 PQYIRDR-LQRMKVFIVLDDVNK  297 (709)
Q Consensus       276 ~~~l~~~-L~~kr~LLVLDdv~~  297 (709)
                      ....... -.++++++++|++..
T Consensus        92 ~~~a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          92 LEKAKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHHHHCCCCEEEEEECHHH
Confidence            1111211 247899999999954

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=97.42  E-value=0.011  Score=64.13  Aligned_cols=101  Identities=12%  Similarity=0.053  Sum_probs=67.7

Q ss_pred             ceEEEecCCCC-----------hhhhhhhhcCCCCCCCCeEEEEEcCchhhhhh----c--CcceEEEecCCChHHHHHH
Q 005191          287 KVFIVLDDVNK-----------YGQLEYFDGGLDRFGPGSRIIVTTRDKTILER----Y--GTHRIYEVEGLNCNEALRL  349 (709)
Q Consensus       287 r~LLVLDdv~~-----------~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~----~--~~~~~~~L~~L~~~ea~~L  349 (709)
                      +-+||+||...           ..+|...+-.    .+=.+||++|-+......    +  ...+.+.|...+.+.|.++
T Consensus       149 ~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv~----~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~y  224 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEENDFIYDKLAEWAASLVQ----NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQY  224 (431)
T ss_pred             CCEEEEcchhccCcccchHHHHHHHHHHHHHh----cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHH
Confidence            67999999832           1234333322    345588888877644332    2  2447789999999999999


Q ss_pred             hhhcccccCCC------------------ChhhHHHHHHHHHHhcCCchHHHHHhhhhcC
Q 005191          350 FCSCAFKENHC------------------PEDLLKHSETAAHYAKGNPLALQVLGSSFHR  391 (709)
Q Consensus       350 f~~~a~~~~~~------------------~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~  391 (709)
                      ...+.......                  ...........+..+||-=.=|..+++.++.
T Consensus       225 V~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiks  284 (431)
T PF10443_consen  225 VLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKS  284 (431)
T ss_pred             HHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHc
Confidence            98887432110                  0123445677888899999999999998865

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

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

Probab=97.39  E-value=0.0027  Score=66.52  Aligned_cols=172  Identities=21%  Similarity=0.315  Sum_probs=99.4

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ...=|-++++++|.+....           +-+.++=|.++|++|.|||-||++++++....     |+..++.      
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~At-----FIrvvgS------  219 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDAT-----FIRVVGS------  219 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCce-----EEEeccH------
Confidence            3455778888888776642           11346788999999999999999999986544     3432211      


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCChh----------------hhhhhhcCCCCC--
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNKYG----------------QLEYFDGGLDRF--  311 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~~--  311 (709)
                             ++....-++..     .+...+.+.. .+.+.+|++|.++...                .+-+|+..+.-+  
T Consensus       220 -------ElVqKYiGEGa-----RlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~  287 (406)
T COG1222         220 -------ELVQKYIGEGA-----RLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP  287 (406)
T ss_pred             -------HHHHHHhccch-----HHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCC
Confidence                   22222211110     1333333333 3578999999985211                122333444333  


Q ss_pred             CCCeEEEEEcCchhhhh-----hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          312 GPGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ..+.+||..|.-.+++.     .-..++.++++.-+.+.-.++|.-|+.+-....+-   -.+.+++.|.|.-
T Consensus       288 ~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dv---d~e~la~~~~g~s  357 (406)
T COG1222         288 RGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDV---DLELLARLTEGFS  357 (406)
T ss_pred             CCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCc---CHHHHHHhcCCCc
Confidence            34678888776554332     22345788888666666677787776332221111   1456777777764

>TIGR00767 rho transcription termination factor Rho

Probab=97.38  E-value=0.00046  Score=74.42  Aligned_cols=91  Identities=14%  Similarity=0.219  Sum_probs=60.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC---hhHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK---IPQYI  279 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~---~~~~l  279 (709)
                      ....++|+|++|.|||||++.+++.+..+ |+..+|+..+++.   .....++++.+...+-....+.+...   ....+
T Consensus       167 ~Gq~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER---~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v  243 (415)
T TIGR00767       167 KGQRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER---PEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMV  243 (415)
T ss_pred             CCCEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC---CccHHHHHHHhhceEEEecCCCChHHHHHHHHHH
Confidence            45788999999999999999999987665 8888888855442   24577888888655422222211111   11111


Q ss_pred             ----HHH-HccCceEEEecCCCC
Q 005191          280 ----RDR-LQRMKVFIVLDDVNK  297 (709)
Q Consensus       280 ----~~~-L~~kr~LLVLDdv~~  297 (709)
                          +.. -.+++++|++|++..
T Consensus       244 ~e~Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       244 IEKAKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHHHHcCCCeEEEEEChhH
Confidence                111 357899999999954

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

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

Probab=97.37  E-value=0.0059  Score=64.56  Aligned_cols=166  Identities=16%  Similarity=0.217  Sum_probs=99.9

Q ss_pred             CCCccccchhhhHHHhhhhccCCC-ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHH
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPD-VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQV  259 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~l  259 (709)
                      .+.+.+|+.++..+..++...+.. +..|.|+|-+|.|||.+.+++.+...   ...+|+..+.     ......+...|
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n---~~~vw~n~~e-----cft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLN---LENVWLNCVE-----CFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcC---CcceeeehHH-----hccHHHHHHHH
Confidence            457889999999999999765543 45668999999999999999998762   2346776332     25667778888


Q ss_pred             HHHhc-CCCCC-CCCC--C----hhHHHHH--HHc--cCceEEEecCCCChhhhhhh-----hcCCCCCCCCeEEEEEcC
Q 005191          260 LSKLL-GENFD-IGTP--K----IPQYIRD--RLQ--RMKVFIVLDDVNKYGQLEYF-----DGGLDRFGPGSRIIVTTR  322 (709)
Q Consensus       260 l~~l~-~~~~~-~~~~--~----~~~~l~~--~L~--~kr~LLVLDdv~~~~~~~~l-----~~~l~~~~~gsrIIvTTR  322 (709)
                      +.+.+ ..... ....  +    ....+.+  ...  ++.++|||||++...+.+..     ............+|+++-
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~  156 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSA  156 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEec
Confidence            88774 11111 1111  1    1222232  122  35899999999764433221     111110112233444443


Q ss_pred             ch---hhhhhcC--cceEEEecCCChHHHHHHhhhcc
Q 005191          323 DK---TILERYG--THRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       323 ~~---~v~~~~~--~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ..   .-...++  ...++..+.-+.+|..+++.+.-
T Consensus       157 ~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  157 PSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             cccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCC
Confidence            32   1121122  23467788899999999986544

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

Probab=97.37  E-value=0.0031  Score=68.47  Aligned_cols=132  Identities=16%  Similarity=0.176  Sum_probs=82.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ....+.|+|..|.|||.|++++.+......+...++.         .........++..+...        ....+++..
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y---------~~se~f~~~~v~a~~~~--------~~~~Fk~~y  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVY---------LTSEDFTNDFVKALRDN--------EMEKFKEKY  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEe---------ccHHHHHHHHHHHHHhh--------hHHHHHHhh
Confidence            3678999999999999999999999887776444443         11223444444444221        234455555


Q ss_pred             ccCceEEEecCCCChh---h-hhhhhcCCCC-CCCCeEEEEEcCch---------hhhhhcCcceEEEecCCChHHHHHH
Q 005191          284 QRMKVFIVLDDVNKYG---Q-LEYFDGGLDR-FGPGSRIIVTTRDK---------TILERYGTHRIYEVEGLNCNEALRL  349 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~~---~-~~~l~~~l~~-~~~gsrIIvTTR~~---------~v~~~~~~~~~~~L~~L~~~ea~~L  349 (709)
                        .-=++++||++-..   . -+.+...+.. ...|-.||+|++..         .+...+...-++++.+++.+.....
T Consensus       175 --~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~ai  252 (408)
T COG0593         175 --SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAI  252 (408)
T ss_pred             --ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHH
Confidence              34488999995311   1 1222222211 12344899998554         2223334557899999999999999


Q ss_pred             hhhcc
Q 005191          350 FCSCA  354 (709)
Q Consensus       350 f~~~a  354 (709)
                      +.+.+
T Consensus       253 L~kka  257 (408)
T COG0593         253 LRKKA  257 (408)
T ss_pred             HHHHH
Confidence            98866

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

Probab=97.37  E-value=0.0062  Score=61.27  Aligned_cols=179  Identities=13%  Similarity=0.094  Sum_probs=99.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ++.+++.++|.-|.|||.+.+.....+.+.--+.+.+.      ........+...+...+.. ............+.+.
T Consensus        49 d~qg~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~------~~~~s~~~~~~ai~~~l~~-~p~~~~~~~~e~~~~~  121 (269)
T COG3267          49 DGQGILAVTGEVGSGKTVLRRALLASLNEDQVAVVVID------KPTLSDATLLEAIVADLES-QPKVNVNAVLEQIDRE  121 (269)
T ss_pred             cCCceEEEEecCCCchhHHHHHHHHhcCCCceEEEEec------CcchhHHHHHHHHHHHhcc-CccchhHHHHHHHHHH
Confidence            45679999999999999999955554332222222222      2224445566666666644 2111111122222222


Q ss_pred             H-----ccCc-eEEEecCCCC--hhhhhhh---hcCCCCCCCCeEEEEEcCch-------hhhhhc-CcceE-EEecCCC
Q 005191          283 L-----QRMK-VFIVLDDVNK--YGQLEYF---DGGLDRFGPGSRIIVTTRDK-------TILERY-GTHRI-YEVEGLN  342 (709)
Q Consensus       283 L-----~~kr-~LLVLDdv~~--~~~~~~l---~~~l~~~~~gsrIIvTTR~~-------~v~~~~-~~~~~-~~L~~L~  342 (709)
                      |     ++++ ..+++|+..+  .+.++.+   ...-......-+|+..-..+       .+.... ....+ |+++|++
T Consensus       122 L~al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~  201 (269)
T COG3267         122 LAALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLT  201 (269)
T ss_pred             HHHHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcC
Confidence            2     3455 9999999953  3334333   32222222222344333221       011111 11233 8999999


Q ss_pred             hHHHHHHhhhcccccCCCCh-hhHHHHHHHHHHhcCCchHHHHHhhh
Q 005191          343 CNEALRLFCSCAFKENHCPE-DLLKHSETAAHYAKGNPLALQVLGSS  388 (709)
Q Consensus       343 ~~ea~~Lf~~~a~~~~~~~~-~~~~~~~~Iv~~~gGlPLAL~~la~~  388 (709)
                      .++...++..+..+...+.+ -..+....|.....|.|.+|..++..
T Consensus       202 ~~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         202 EAETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             hHHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence            99999888877754433332 33456778889999999999887653

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.35  E-value=0.0014  Score=73.68  Aligned_cols=176  Identities=16%  Similarity=0.158  Sum_probs=91.7

Q ss_pred             CCCccccchhhhHHHhhh---hc-----cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCH
Q 005191          181 SDGLIGLESHVEQVRSLL---AI-----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGL  252 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L---~~-----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l  252 (709)
                      ...+.|.+...+.+....   ..     +-..++-|.++|++|+|||.+|+.+++...-.|    +......        
T Consensus       227 ~~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~~~~~----~~l~~~~--------  294 (489)
T CHL00195        227 ISDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPL----LRLDVGK--------  294 (489)
T ss_pred             HHHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEEEhHH--------
Confidence            345677765555554321   11     123457789999999999999999998754322    1111110        


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--------------hhhhhhcCCCCCCCCeEEE
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--------------QLEYFDGGLDRFGPGSRII  318 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--------------~~~~l~~~l~~~~~gsrII  318 (709)
                            +.....+    .........+...-...+++|++|+++..-              .+..++..+.....+.-||
T Consensus       295 ------l~~~~vG----ese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vI  364 (489)
T CHL00195        295 ------LFGGIVG----ESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVV  364 (489)
T ss_pred             ------hcccccC----hHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEE
Confidence                  0000000    000002222222223578999999996321              0112222222223445566


Q ss_pred             EEcCchhhhh-h----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          319 VTTRDKTILE-R----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       319 vTTR~~~v~~-~----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .||.+..... .    ...+..+.++..+.++-.++|..+..+.. +..........+++.+.|.-
T Consensus       365 aTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~-~~~~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        365 ATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFR-PKSWKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             EecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcC-CCcccccCHHHHHhhcCCCC
Confidence            7776553222 1    13457788999999999999987763322 11101122456666666653

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.35  E-value=0.0057  Score=65.02  Aligned_cols=93  Identities=13%  Similarity=0.141  Sum_probs=62.2

Q ss_pred             CceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCC
Q 005191          286 MKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCP  361 (709)
Q Consensus       286 kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~  361 (709)
                      +.=++|+|+++.  .+.-+.++..+..-.+++.+|++|.+. .+++.. +.-..+.+.+++.+++.+.+....     .+
T Consensus       113 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~~-----~~  187 (319)
T PRK08769        113 IAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQG-----VS  187 (319)
T ss_pred             CcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHcC-----CC
Confidence            456899999975  445566666665545677777777654 344332 233678999999999998886531     11


Q ss_pred             hhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          362 EDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       362 ~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                         ...+..++..++|.|+....+.
T Consensus       188 ---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        188 ---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             ---hHHHHHHHHHcCCCHHHHHHHh
Confidence               1235678999999998665443

>PRK12377 putative replication protein; Provisional

Probab=97.35  E-value=0.0039  Score=63.90  Aligned_cols=36  Identities=19%  Similarity=0.171  Sum_probs=29.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+.|+|.+|+|||.||.++++.+..+...+.++.
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            457899999999999999999998876654455554

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.30  E-value=0.00083  Score=61.31  Aligned_cols=35  Identities=26%  Similarity=0.357  Sum_probs=27.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.+.|+|++|+||||+++.++..+.......+++.
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~   37 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYID   37 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEEC
Confidence            57899999999999999999998766543334443

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.

>PF08357 SEFIR: SEFIR domain; InterPro: IPR013568 This domain is found in IL17 receptors (IL17Rs, e

Probab=97.29  E-value=0.00028  Score=66.64  Aligned_cols=64  Identities=22%  Similarity=0.383  Sum_probs=55.0

Q ss_pred             eEEecCCccccc-CchHHHHHHHHHhC-CCceEEcC-CCCC--CCcccHHHHHHHHhccceeEEeccCc
Q 005191            7 DVFLSFRGEDTR-DNFLSHLVVALQEK-KIKTFIDE-ELTR--GDQISPALVKAIEESMISVIIFSKNY   70 (709)
Q Consensus         7 dvFiS~~~~D~~-~~f~~~L~~~L~~~-g~~~~~d~-~~~~--g~~~~~~i~~ai~~S~~~ivvlS~~y   70 (709)
                      -|||||++.... ..+|..|++.|++. |+.|.+|. +...  +..+..++.+++++++.+|+|+||.|
T Consensus         2 kVfI~Ys~d~~~h~~~V~~la~~L~~~~g~~V~lD~~~~~~i~~~g~~~W~~~~~~~ad~Vliv~S~~~   70 (150)
T PF08357_consen    2 KVFISYSHDSEEHKEWVLALAEFLRQNCGIDVILDQWELNEIARQGPPRWMERQIREADKVLIVCSPGY   70 (150)
T ss_pred             eEEEEeCCCCHHHHHHHHHHHHHHHhccCCceeecHHhhcccccCCHHHHHHHHHhcCCEEEEEeccch
Confidence            499999986533 36799999999999 99999998 6643  77889999999999999999999655

g. Q60943 from SWISSPROT) and SEF proteins (e.g. Q8QHJ9 from SWISSPROT). The latter are feedback inhibitors of FGF signalling and are also thought to be receptors. Due to its similarity to the TIR domain (IPR000157 from INTERPRO), the SEFIR region is thought to be involved in homotypic interactions with other SEFIR/TIR-domain-containing proteins. Thus, SEFs and IL17Rs may be involved in TOLL/IL1R-like signalling pathways [].

>PRK08181 transposase; Validated

Probab=97.28  E-value=0.0011  Score=68.78  Aligned_cols=35  Identities=17%  Similarity=0.123  Sum_probs=27.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .-+.|+|++|+|||.||..+++....+.-.+.|+.
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            45899999999999999999998765544445554

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.26  E-value=0.0024  Score=76.29  Aligned_cols=172  Identities=22%  Similarity=0.249  Sum_probs=94.4

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ..+.|.+...++|.+.+..           +-...+-+.++|++|+|||+||+.+++.....|    +.....       
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~~~~f----i~v~~~-------  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANF----IAVRGP-------  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhcCCCE----EEEehH-------
Confidence            4567877777777665531           112345688999999999999999999865333    111000       


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCCh--------------hhhhhhhcCCCC--CCC
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKY--------------GQLEYFDGGLDR--FGP  313 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~--------------~~~~~l~~~l~~--~~~  313 (709)
                             .++....+.     ... +...+...-...+.+|+||+++..              .....++..+..  ...
T Consensus       522 -------~l~~~~vGe-----se~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~  589 (733)
T TIGR01243       522 -------EILSKWVGE-----SEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELS  589 (733)
T ss_pred             -------HHhhcccCc-----HHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCC
Confidence                   111111000     001 222222333456899999998532              112333333321  123


Q ss_pred             CeEEEEEcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          314 GSRIIVTTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       314 gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      +..||.||..+.....     ...+..+.++..+.++-.++|..+.-+....+ .  .....+++.+.|.-
T Consensus       590 ~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~~~~~-~--~~l~~la~~t~g~s  657 (733)
T TIGR01243       590 NVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSMPLAE-D--VDLEELAEMTEGYT  657 (733)
T ss_pred             CEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCCCCCc-c--CCHHHHHHHcCCCC
Confidence            5556777765543321     12457788999999998999876552221111 1  11456777777654

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.

>PRK10536 hypothetical protein; Provisional

Probab=97.21  E-value=0.0012  Score=67.23  Aligned_cols=137  Identities=14%  Similarity=0.145  Sum_probs=74.9

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH-h-hhcccceEEEeeecccccc----cCCHHH
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ-F-SQKFEGKYFMANVREESEK----CGGLVH  254 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~-~-~~~f~~~~~v~~~~~~~~~----~~~l~~  254 (709)
                      ...+.+|......+..++..    ...+.+.|++|.|||+||..++.+ + ...|...+.....-...+.    +.++.+
T Consensus        54 ~~~i~p~n~~Q~~~l~al~~----~~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~e  129 (262)
T PRK10536         54 TSPILARNEAQAHYLKAIES----KQLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAE  129 (262)
T ss_pred             CccccCCCHHHHHHHHHHhc----CCeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHH
Confidence            35577888888888888763    349999999999999999998884 3 3445444333211111110    111211


Q ss_pred             ----HHHHHHHHh----cCCCCC-C--CCCC-hhHHHHHHHccCc---eEEEecCCCC--hhhhhhhhcCCCCCCCCeEE
Q 005191          255 ----LRNQVLSKL----LGENFD-I--GTPK-IPQYIRDRLQRMK---VFIVLDDVNK--YGQLEYFDGGLDRFGPGSRI  317 (709)
Q Consensus       255 ----l~~~ll~~l----~~~~~~-~--~~~~-~~~~l~~~L~~kr---~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrI  317 (709)
                          ...-+...+    +..... .  .... +.-.=..+++++.   -+||+|.+.+  ..+...++..   .+.+|++
T Consensus       130 K~~p~~~pi~D~L~~~~~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR---~g~~sk~  206 (262)
T PRK10536        130 KFAPYFRPVYDVLVRRLGASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTR---LGENVTV  206 (262)
T ss_pred             HHHHHHHHHHHHHHHHhChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhh---cCCCCEE
Confidence                122222222    110000 0  0000 0000112455554   4999999965  4455666544   4789999


Q ss_pred             EEEcCch
Q 005191          318 IVTTRDK  324 (709)
Q Consensus       318 IvTTR~~  324 (709)
                      |+|--..
T Consensus       207 v~~GD~~  213 (262)
T PRK10536        207 IVNGDIT  213 (262)
T ss_pred             EEeCChh
Confidence            9987654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=97.20  E-value=0.002  Score=76.89  Aligned_cols=174  Identities=16%  Similarity=0.207  Sum_probs=92.4

Q ss_pred             CCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      .+.+.|.+..++.+.+++..           +-...+-+.|+|++|+|||+||+.+++.....|   +.+. ...     
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~---i~i~-~~~-----  247 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF---ISIN-GPE-----  247 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE---EEEe-cHH-----
Confidence            34588999999988887642           112346788999999999999999998764332   1111 110     


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh-------------hhhhhhcCCCCC-CCCe
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG-------------QLEYFDGGLDRF-GPGS  315 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~~l~~~-~~gs  315 (709)
                           +.    ....    ......+...+.....+.+.+|+||+++...             ....+...+... ..+.
T Consensus       248 -----i~----~~~~----g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~  314 (733)
T TIGR01243       248 -----IM----SKYY----GESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGR  314 (733)
T ss_pred             -----Hh----cccc----cHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCC
Confidence                 00    0000    0000002223333334567899999985321             122233322211 2233


Q ss_pred             EEEE-EcCchh-hhhhc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          316 RIIV-TTRDKT-ILERY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       316 rIIv-TTR~~~-v~~~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .++| ||.... +....    .....+.++..+.++-.+++..+.-......   ......+++.+.|.-
T Consensus       315 vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~---d~~l~~la~~t~G~~  381 (733)
T TIGR01243       315 VIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE---DVDLDKLAEVTHGFV  381 (733)
T ss_pred             EEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc---ccCHHHHHHhCCCCC
Confidence            3444 554432 11111    1235678888888888888875542111111   122566777777764

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.

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.15  E-value=0.018  Score=61.16  Aligned_cols=90  Identities=12%  Similarity=0.160  Sum_probs=62.2

Q ss_pred             CceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCC
Q 005191          286 MKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCP  361 (709)
Q Consensus       286 kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~  361 (709)
                      +.=++|+|+++.  .+..+.++..+..-.+++.+|++|.+. .+++.. +.-..+.+.+++.+++.+.+....     .+
T Consensus       108 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~-----~~  182 (319)
T PRK06090        108 GYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQG-----IT  182 (319)
T ss_pred             CceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcC-----Cc
Confidence            445889999975  456677777776556777777766654 444433 233678999999999999886542     11


Q ss_pred             hhhHHHHHHHHHHhcCCchHHHHH
Q 005191          362 EDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       362 ~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                           ....++..++|.|+....+
T Consensus       183 -----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        183 -----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             -----hHHHHHHHcCCCHHHHHHH
Confidence                 1356788999999976555

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

Probab=97.15  E-value=0.0086  Score=65.57  Aligned_cols=130  Identities=20%  Similarity=0.186  Sum_probs=76.4

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      .....+.+.|++|+|||+||..++..  +.|+.+-.++     .+..-++.+-.+-..              ......+.
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~--S~FPFvKiiS-----pe~miG~sEsaKc~~--------------i~k~F~DA  594 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS--SDFPFVKIIS-----PEDMIGLSESAKCAH--------------IKKIFEDA  594 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh--cCCCeEEEeC-----hHHccCccHHHHHHH--------------HHHHHHHh
Confidence            45678889999999999999999875  6788665554     111011111110000              11122223


Q ss_pred             HccCceEEEecCCCChhhhh------------hhh---cCCCCCCCCeEEEEEcCchhhhhhcCc----ceEEEecCCCh
Q 005191          283 LQRMKVFIVLDDVNKYGQLE------------YFD---GGLDRFGPGSRIIVTTRDKTILERYGT----HRIYEVEGLNC  343 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~~~~~------------~l~---~~l~~~~~gsrIIvTTR~~~v~~~~~~----~~~~~L~~L~~  343 (709)
                      -+..--.||+||++..-+|-            .++   ...+..+..--|+-||....++..++.    ...|.++.++.
T Consensus       595 YkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~  674 (744)
T KOG0741|consen  595 YKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTT  674 (744)
T ss_pred             hcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCc
Confidence            34455689999996543332            222   222322334445667777788887752    35789999987


Q ss_pred             -HHHHHHhhhc
Q 005191          344 -NEALRLFCSC  353 (709)
Q Consensus       344 -~ea~~Lf~~~  353 (709)
                       ++..+.++..
T Consensus       675 ~~~~~~vl~~~  685 (744)
T KOG0741|consen  675 GEQLLEVLEEL  685 (744)
T ss_pred             hHHHHHHHHHc
Confidence             6677776554

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.14  E-value=0.0013  Score=75.88  Aligned_cols=53  Identities=21%  Similarity=0.288  Sum_probs=43.4

Q ss_pred             CCCCCCccccchhhhHHHhhhhccC---CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGL---PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      |.....++|-+..++++..++....   ...+++.|+|++|+||||+++.++..+.
T Consensus        80 P~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602        80 PETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHHhh
Confidence            4556779999999999999987532   3357899999999999999999998653

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

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

Probab=97.13  E-value=0.0042  Score=73.98  Aligned_cols=49  Identities=18%  Similarity=0.250  Sum_probs=38.6

Q ss_pred             CCCccccchhhhHHHhhhhcc------CCC-ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          181 SDGLIGLESHVEQVRSLLAIG------LPD-VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~------~~~-~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...++|-+..++.+.+.+...      .+. ...+.++|++|+|||.||+.+++.+
T Consensus       453 ~~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l  508 (731)
T TIGR02639       453 KAKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL  508 (731)
T ss_pred             hcceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh
Confidence            357889998888888877631      112 3467899999999999999999876

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=97.12  E-value=0.011  Score=63.44  Aligned_cols=91  Identities=15%  Similarity=0.170  Sum_probs=60.2

Q ss_pred             CceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCc-hhhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCC
Q 005191          286 MKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRD-KTILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCP  361 (709)
Q Consensus       286 kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~-~~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~  361 (709)
                      +.=++|+|+++.  .+..+.++..+..-.+++.+|++|.+ ..+++.. +.-..+.+.+++.++..+.+....    . +
T Consensus       132 ~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~----~-~  206 (342)
T PRK06964        132 GARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG----V-A  206 (342)
T ss_pred             CceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC----C-C
Confidence            445888999974  55677777777665677766666555 4444332 223688999999999999987642    1 1


Q ss_pred             hhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          362 EDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       362 ~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      +     ...++..++|.|+....+.
T Consensus       207 ~-----~~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        207 D-----ADALLAEAGGAPLAALALA  226 (342)
T ss_pred             h-----HHHHHHHcCCCHHHHHHHH
Confidence            1     2235778899997554443

>PRK09183 transposase/IS protein; Provisional

Probab=97.11  E-value=0.0015  Score=67.65  Aligned_cols=28  Identities=21%  Similarity=0.227  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+.|+|++|+|||+||..++......
T Consensus       102 ~~~v~l~Gp~GtGKThLa~al~~~a~~~  129 (259)
T PRK09183        102 NENIVLLGPSGVGKTHLAIALGYEAVRA  129 (259)
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHHHHc
Confidence            3567899999999999999998865443

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.10  E-value=0.017  Score=61.59  Aligned_cols=173  Identities=10%  Similarity=0.095  Sum_probs=95.6

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCC-
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDI-  270 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~-  270 (709)
                      +.|.+.+..+ .-.+.+.++|+.|+||+++|..++..+--.-+..      ...    .+.-...+.+.......-... 
T Consensus        12 ~~l~~~~~~~-rl~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~------~~~----Cg~C~sC~~~~~g~HPD~~~i~   80 (325)
T PRK06871         12 QQITQAFQQG-LGHHALLFKADSGLGTEQLIRALAQWLMCQTPQG------DQP----CGQCHSCHLFQAGNHPDFHILE   80 (325)
T ss_pred             HHHHHHHHcC-CcceeEEeECCCCCCHHHHHHHHHHHHcCCCCCC------CCC----CCCCHHHHHHhcCCCCCEEEEc
Confidence            3444444422 1257888999999999999999998653211000      000    000011111111100000000 


Q ss_pred             --CCCC-hhHHHH---HHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-CcceE
Q 005191          271 --GTPK-IPQYIR---DRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GTHRI  335 (709)
Q Consensus       271 --~~~~-~~~~l~---~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~~~~  335 (709)
                        .... .++.++   +.+     .+++=++|+|+++.  ......++..+..-.+++.+|++|.+. .+++.. +.-..
T Consensus        81 p~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~  160 (325)
T PRK06871         81 PIDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQT  160 (325)
T ss_pred             cccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceE
Confidence              0001 233333   232     23456888999975  446677777776656777777777665 444332 23368


Q ss_pred             EEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          336 YEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       336 ~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      +.+.+++.+++.+.+.....   . .   ...+...+..++|.|+..
T Consensus       161 ~~~~~~~~~~~~~~L~~~~~---~-~---~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        161 WLIHPPEEQQALDWLQAQSS---A-E---ISEILTALRINYGRPLLA  200 (325)
T ss_pred             EeCCCCCHHHHHHHHHHHhc---c-C---hHHHHHHHHHcCCCHHHH
Confidence            89999999999998876541   1 1   112556788899999643

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=97.10  E-value=0.013  Score=62.88  Aligned_cols=174  Identities=12%  Similarity=0.055  Sum_probs=95.1

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCC----C
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGE----N  267 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~----~  267 (709)
                      +.+.+.+..+ .-.+.+.++|+.|+||+++|..++..+--.-+..         ... .+.-.-.+.+.......    .
T Consensus        12 ~~l~~~~~~~-rl~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~---------~~~-Cg~C~sC~~~~~g~HPD~~~i~   80 (334)
T PRK07993         12 EQLVGSYQAG-RGHHALLIQALPGMGDDALIYALSRWLMCQQPQG---------HKS-CGHCRGCQLMQAGTHPDYYTLT   80 (334)
T ss_pred             HHHHHHHHcC-CcceEEeeECCCCCCHHHHHHHHHHHHcCCCCCC---------CCC-CCCCHHHHHHHcCCCCCEEEEe
Confidence            3444544432 2367888999999999999999998652210000         000 00000011110000000    0


Q ss_pred             CCCCCCC-hhHH---HHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-Ccce
Q 005191          268 FDIGTPK-IPQY---IRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GTHR  334 (709)
Q Consensus       268 ~~~~~~~-~~~~---l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~~~  334 (709)
                      ++..... .++.   +.+.+     .+++=++|+|+++.  .+..+.++..+..-.+++.+|++|.+. .+++.. +.-.
T Consensus        81 p~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq  160 (334)
T PRK07993         81 PEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCR  160 (334)
T ss_pred             cccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccc
Confidence            0000000 2222   22322     24556899999975  446677777776556677777777664 344332 2235


Q ss_pred             EEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHH
Q 005191          335 IYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQ  383 (709)
Q Consensus       335 ~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~  383 (709)
                      .+.+.+++.+++.+.+.... +   .+   .+.+..++..++|.|....
T Consensus       161 ~~~~~~~~~~~~~~~L~~~~-~---~~---~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        161 LHYLAPPPEQYALTWLSREV-T---MS---QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             cccCCCCCHHHHHHHHHHcc-C---CC---HHHHHHHHHHcCCCHHHHH
Confidence            68999999999998886542 1   11   2236678899999996443

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

Probab=97.08  E-value=0.011  Score=68.94  Aligned_cols=153  Identities=14%  Similarity=0.197  Sum_probs=87.2

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccc-----eEEEeeecccccccCCHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEG-----KYFMANVREESEKCGGLV  253 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~-----~~~v~~~~~~~~~~~~l~  253 (709)
                      .-++++||+.|++.+.+.|.....+.+  .++|.+|+|||+++.-++.++... .+.     .++-.+            
T Consensus       168 klDPvIGRd~EI~r~iqIL~RR~KNNP--vLiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD------------  233 (786)
T COG0542         168 KLDPVIGRDEEIRRTIQILSRRTKNNP--VLVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLD------------  233 (786)
T ss_pred             CCCCCcChHHHHHHHHHHHhccCCCCC--eEecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEec------------
Confidence            346699999999999999986543333  357999999999999999986443 221     111111            


Q ss_pred             HHHHHHHHHhcCCCCCCCCCChhHH-HHHHHccCceEEEecCCCC-----------hhhhhhhhcCCCCCCCCeEEEEEc
Q 005191          254 HLRNQVLSKLLGENFDIGTPKIPQY-IRDRLQRMKVFIVLDDVNK-----------YGQLEYFDGGLDRFGPGSRIIVTT  321 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~~~~~~~-l~~~L~~kr~LLVLDdv~~-----------~~~~~~l~~~l~~~~~gsrIIvTT  321 (709)
                           +..-..+......-++.... +.+.-+..+++|++|.+..           .+.-+-+.+.+.. +.--.|=.||
T Consensus       234 -----~g~LvAGakyRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLAR-GeL~~IGATT  307 (786)
T COG0542         234 -----LGSLVAGAKYRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALAR-GELRCIGATT  307 (786)
T ss_pred             -----HHHHhccccccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhc-CCeEEEEecc
Confidence                 11111111111122222222 2222234589999999853           2223334455432 2223344555


Q ss_pred             Cchhhhhh-------cCcceEEEecCCChHHHHHHhhhc
Q 005191          322 RDKTILER-------YGTHRIYEVEGLNCNEALRLFCSC  353 (709)
Q Consensus       322 R~~~v~~~-------~~~~~~~~L~~L~~~ea~~Lf~~~  353 (709)
                      -++ .-..       ....+.+.+...+.+++.+.++..
T Consensus       308 ~~E-YRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGl  345 (786)
T COG0542         308 LDE-YRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGL  345 (786)
T ss_pred             HHH-HHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHH
Confidence            443 1111       123467889999999999988644

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

Probab=97.06  E-value=0.0013  Score=72.24  Aligned_cols=55  Identities=20%  Similarity=0.222  Sum_probs=42.0

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh--cccceEEEe
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ--KFEGKYFMA  240 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f~~~~~v~  240 (709)
                      ..+++.+..++.+...|..    .+.+.++|++|+|||++|+.+++.+..  .+....|+.
T Consensus       175 ~d~~i~e~~le~l~~~L~~----~~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~Vt  231 (459)
T PRK11331        175 NDLFIPETTIETILKRLTI----KKNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQ  231 (459)
T ss_pred             hcccCCHHHHHHHHHHHhc----CCCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEe
Confidence            4577888889999888873    357788999999999999999997643  344444444

>PRK06526 transposase; Provisional

Probab=97.06  E-value=0.0011  Score=68.35  Aligned_cols=28  Identities=29%  Similarity=0.115  Sum_probs=23.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..-+.|+|++|+|||+||..+.......
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~a~~~  125 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIRACQA  125 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHHHHHC
Confidence            4568999999999999999999876544

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.03  E-value=0.0028  Score=64.80  Aligned_cols=36  Identities=17%  Similarity=0.249  Sum_probs=28.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+.++|.+|+|||+||..+++.+...-..++++.
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it  134 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT  134 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            457889999999999999999998766544455553

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

Probab=96.99  E-value=0.00055  Score=66.62  Aligned_cols=36  Identities=25%  Similarity=0.267  Sum_probs=26.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..-+.|+|.+|+|||.||..+++....+--.+.|+.
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            356899999999999999999997666444455554

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.98  E-value=0.018  Score=64.49  Aligned_cols=188  Identities=18%  Similarity=0.166  Sum_probs=109.2

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|-+.-...|.+.+..+. -.......|+-|+||||+|+-++.-+--.-.     .    ...+ .+--...+.
T Consensus        13 ~~F~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~AkalNC~~~-----~----~~eP-C~~C~~Ck~   81 (515)
T COG2812          13 KTFDDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKALNCENG-----P----TAEP-CGKCISCKE   81 (515)
T ss_pred             ccHHHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHhcCCCC-----C----CCCc-chhhhhhHh
Confidence            345668999999999999887542 2566778999999999999999886421100     0    0000 111111111


Q ss_pred             HHHHhcCCCCCCCC--CChhHHHHHHH--------ccCceEEEecCCC--ChhhhhhhhcCCCCCCCCeEEEEEcCchh-
Q 005191          259 VLSKLLGENFDIGT--PKIPQYIRDRL--------QRMKVFIVLDDVN--KYGQLEYFDGGLDRFGPGSRIIVTTRDKT-  325 (709)
Q Consensus       259 ll~~l~~~~~~~~~--~~~~~~l~~~L--------~~kr~LLVLDdv~--~~~~~~~l~~~l~~~~~gsrIIvTTR~~~-  325 (709)
                      +...-......++.  ...++.+++..        .++.=+.|+|.|+  +...+..++..+..-.+....|+.|.+.. 
T Consensus        82 I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~K  161 (515)
T COG2812          82 INEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQK  161 (515)
T ss_pred             hhcCCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCc
Confidence            11110000001111  11333344333        2345589999996  56688999888876566667677666653 


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      +... .+....|.++.++.++-...+...+-...  -....+...-|++..+|..
T Consensus       162 ip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~--I~~e~~aL~~ia~~a~Gs~  214 (515)
T COG2812         162 IPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEG--INIEEDALSLIARAAEGSL  214 (515)
T ss_pred             CchhhhhccccccccCCCHHHHHHHHHHHHHhcC--CccCHHHHHHHHHHcCCCh
Confidence            2221 23346789999999988888877763322  1223345566666666644

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

Probab=96.94  E-value=0.0053  Score=68.31  Aligned_cols=93  Identities=20%  Similarity=0.347  Sum_probs=60.8

Q ss_pred             CCCccccchhhhHHHhhhhcc----------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          181 SDGLIGLESHVEQVRSLLAIG----------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ...+=|.+..+.+|.+++..-          -..++-|.++|++|+|||.||++++.++.-.|     +.    .+.+  
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf-----~~----isAp--  257 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPF-----LS----ISAP--  257 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCce-----Ee----ecch--
Confidence            456789999999998877531          12368899999999999999999999864433     22    1111  


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCC
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVN  296 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~  296 (709)
                             ++++.+.++     .++ +.+.+.+.-..-++++++|+++
T Consensus       258 -------eivSGvSGE-----SEkkiRelF~~A~~~aPcivFiDeID  292 (802)
T KOG0733|consen  258 -------EIVSGVSGE-----SEKKIRELFDQAKSNAPCIVFIDEID  292 (802)
T ss_pred             -------hhhcccCcc-----cHHHHHHHHHHHhccCCeEEEeeccc
Confidence                   222222111     111 4444444556689999999996

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.93  E-value=0.016  Score=62.15  Aligned_cols=156  Identities=15%  Similarity=0.091  Sum_probs=84.9

Q ss_pred             ccc-cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc--cceEEEeeecccccccCCHHHHHHHHH
Q 005191          184 LIG-LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF--EGKYFMANVREESEKCGGLVHLRNQVL  260 (709)
Q Consensus       184 ~vG-R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~v~~~~~~~~~~~~l~~l~~~ll  260 (709)
                      ++| -+.-++.|...+..+ .-.+...++|+.|+|||++|..+++.+-..-  ....            .+.-...+.+.
T Consensus         7 i~~~q~~~~~~L~~~~~~~-~l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~~------------cg~C~~c~~~~   73 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKN-RLSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVEP------------CGTCTNCKRID   73 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcC-CCCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCC------------CCcCHHHHHHh
Confidence            455 445566666666533 2357789999999999999999988753210  0000            00000000000


Q ss_pred             HHhc-------CCCCCCCCCChhHHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-
Q 005191          261 SKLL-------GENFDIGTPKIPQYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-  325 (709)
Q Consensus       261 ~~l~-------~~~~~~~~~~~~~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-  325 (709)
                      ....       .....+. .+.+..+.+.+     .+.+=++|+|+++.  .+..+.++..+..-.+++.+|++|.+.. 
T Consensus        74 ~~~hpD~~~i~~~~~~i~-id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~  152 (329)
T PRK08058         74 SGNHPDVHLVAPDGQSIK-KDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQ  152 (329)
T ss_pred             cCCCCCEEEeccccccCC-HHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHh
Confidence            0000       0000000 00111122222     23455799999964  4456667766665566777777776543 


Q ss_pred             hhhhc-CcceEEEecCCChHHHHHHhhhc
Q 005191          326 ILERY-GTHRIYEVEGLNCNEALRLFCSC  353 (709)
Q Consensus       326 v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~  353 (709)
                      +.+.. +....+++.+++.++..+.+...
T Consensus       153 ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        153 ILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             CcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            33322 23468899999999998888653

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

Probab=96.93  E-value=0.0034  Score=71.30  Aligned_cols=160  Identities=18%  Similarity=0.251  Sum_probs=89.6

Q ss_pred             CCccccchhhhHHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      ..-+|.++-.+.+.+.|.-    ..-...+++++|+||+|||+|++.+++-+...|-. +   .++...+. ..+..-.+
T Consensus       323 ~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~RkfvR-~---sLGGvrDE-AEIRGHRR  397 (782)
T COG0466         323 KDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKFVR-I---SLGGVRDE-AEIRGHRR  397 (782)
T ss_pred             ccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCEEE-E---ecCccccH-HHhccccc
Confidence            4678999999999998853    22346899999999999999999999987666521 1   12222221 11111111


Q ss_pred             HHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh------hhhhhhcCCCC------------CC-CCeEE-
Q 005191          258 QVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG------QLEYFDGGLDR------------FG-PGSRI-  317 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~------~~~~l~~~l~~------------~~-~gsrI-  317 (709)
                      ..+.++        ....++.+++. +.++-|++||.++...      -..+++..+..            .. .=|.| 
T Consensus       398 TYIGam--------PGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         398 TYIGAM--------PGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             cccccC--------ChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheE
Confidence            111111        00133333322 4467789999996321      11222222210            00 11333 


Q ss_pred             EEEcCch-h-h-hhhcCcceEEEecCCChHHHHHHhhhccc
Q 005191          318 IVTTRDK-T-I-LERYGTHRIYEVEGLNCNEALRLFCSCAF  355 (709)
Q Consensus       318 IvTTR~~-~-v-~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~  355 (709)
                      .|||-|. + + .+.++...++++.+.+.+|-.++-.++..
T Consensus       469 FiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~Li  509 (782)
T COG0466         469 FIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHLI  509 (782)
T ss_pred             EEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhcc
Confidence            3444433 2 1 22234457999999999999988877763

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.88  E-value=0.0046  Score=74.83  Aligned_cols=51  Identities=20%  Similarity=0.281  Sum_probs=40.5

Q ss_pred             CCCccccchhhhHHHhhhhccC------CC-ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGL------PD-VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~------~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++|.+..++.+...+....      .. ...+.+.|++|+|||++|+.++..+..
T Consensus       564 ~~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~  621 (852)
T TIGR03346       564 HERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFD  621 (852)
T ss_pred             hcccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            3578999999999998886421      11 357889999999999999999987644

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.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.85  E-value=0.0032  Score=62.44  Aligned_cols=111  Identities=12%  Similarity=0.146  Sum_probs=64.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR  285 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~  285 (709)
                      .++.|.|++|.||||++..+...+.......++...-     +   ...........+...............++..+..
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~-----~---~E~~~~~~~~~i~q~~vg~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIED-----P---IEFVHESKRSLINQREVGLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcC-----C---ccccccCccceeeecccCCCccCHHHHHHHHhcC
Confidence            3789999999999999999888766544444443211     0   0000000000011111111122366778888888


Q ss_pred             CceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhh
Q 005191          286 MKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTIL  327 (709)
Q Consensus       286 kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~  327 (709)
                      .+=++++|++.+.+.+.......   ..|..++.|+......
T Consensus        74 ~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          74 DPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcHH
Confidence            88899999998777665544332   3455677777655443

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.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.83  E-value=0.013  Score=58.43  Aligned_cols=57  Identities=19%  Similarity=0.319  Sum_probs=43.0

Q ss_pred             CCCCCccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG  235 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~  235 (709)
                      ..-..++|-+...+.|.+-...  ..-...-|.+||.-|+|||+|++++.+.+.+....
T Consensus        57 i~L~~l~Gvd~qk~~L~~NT~~F~~G~pANnVLLwGaRGtGKSSLVKA~~~e~~~~glr  115 (287)
T COG2607          57 IDLADLVGVDRQKEALVRNTEQFAEGLPANNVLLWGARGTGKSSLVKALLNEYADEGLR  115 (287)
T ss_pred             cCHHHHhCchHHHHHHHHHHHHHHcCCcccceEEecCCCCChHHHHHHHHHHHHhcCCe
Confidence            3445689999888887764432  12235678899999999999999999998877655

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

Probab=96.82  E-value=0.0011  Score=61.54  Aligned_cols=22  Identities=36%  Similarity=0.372  Sum_probs=20.6

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|+|++|+|||+||+.+++.+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999987

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.

>PRK06921 hypothetical protein; Provisional

Probab=96.82  E-value=0.0017  Score=67.52  Aligned_cols=36  Identities=19%  Similarity=0.268  Sum_probs=29.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~  240 (709)
                      ...+.++|.+|+|||.||.++++.+..+ ...++|+.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            4678999999999999999999987765 44455655

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

Probab=96.82  E-value=0.0045  Score=63.93  Aligned_cols=36  Identities=19%  Similarity=0.400  Sum_probs=29.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh----hhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF----SQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~----~~~f~~~~~v~  240 (709)
                      .|+|.++|+||.|||+|++++++++    .++|.....+.
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE  216 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE  216 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE
Confidence            5899999999999999999999964    44565555554

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A

Probab=96.81  E-value=0.015  Score=55.68  Aligned_cols=137  Identities=15%  Similarity=0.155  Sum_probs=71.9

Q ss_pred             cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc--------------------ccceEEEeeecccc
Q 005191          187 LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK--------------------FEGKYFMANVREES  246 (709)
Q Consensus       187 R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~--------------------f~~~~~v~~~~~~~  246 (709)
                      -+...+.|.+.+..+ .-...+.++|+.|+||+++|..+++.+-..                    ++...++..... .
T Consensus         2 q~~~~~~L~~~~~~~-~l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~-~   79 (162)
T PF13177_consen    2 QEEIIELLKNLIKSG-RLPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKK-K   79 (162)
T ss_dssp             -HHHHHHHHHHHHCT-C--SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTS-S
T ss_pred             cHHHHHHHHHHHHcC-CcceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccc-c
Confidence            344556666666533 225678999999999999999999864221                    233333321100 0


Q ss_pred             cccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          247 EKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       247 ~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      .. ....++ +.+...+....               ..++.=++|+||++.  .+....++..+.....++.+|++|++.
T Consensus        80 ~~-i~i~~i-r~i~~~~~~~~---------------~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~  142 (162)
T PF13177_consen   80 KS-IKIDQI-REIIEFLSLSP---------------SEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNP  142 (162)
T ss_dssp             SS-BSHHHH-HHHHHHCTSS----------------TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-G
T ss_pred             ch-hhHHHH-HHHHHHHHHHH---------------hcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECCh
Confidence            00 111111 12222221111               023456899999975  556677776666657788998888876


Q ss_pred             h-hhhhc-CcceEEEecCCC
Q 005191          325 T-ILERY-GTHRIYEVEGLN  342 (709)
Q Consensus       325 ~-v~~~~-~~~~~~~L~~L~  342 (709)
                      . +.... +.-..+.+.+|+
T Consensus       143 ~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  143 SKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GGS-HHHHTTSEEEEE----
T ss_pred             HHChHHHHhhceEEecCCCC
Confidence            4 33322 233566777664

...

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

Probab=96.80  E-value=0.0039  Score=64.29  Aligned_cols=74  Identities=16%  Similarity=0.234  Sum_probs=45.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      +..-+.++|.+|+|||.||.++.+++...--.+.|+.           ..++..++.......       .....+.+.+
T Consensus       104 ~~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~-----------~~el~~~Lk~~~~~~-------~~~~~l~~~l  165 (254)
T COG1484         104 RGENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT-----------APDLLSKLKAAFDEG-------RLEEKLLREL  165 (254)
T ss_pred             cCCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE-----------HHHHHHHHHHHHhcC-------chHHHHHHHh
Confidence            4567889999999999999999999884333344443           234555544443321       1222233322


Q ss_pred             ccCceEEEecCCC
Q 005191          284 QRMKVFIVLDDVN  296 (709)
Q Consensus       284 ~~kr~LLVLDdv~  296 (709)
                      . +-=||||||+-
T Consensus       166 ~-~~dlLIiDDlG  177 (254)
T COG1484         166 K-KVDLLIIDDIG  177 (254)
T ss_pred             h-cCCEEEEeccc
Confidence            2 23489999994

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.79  E-value=0.0052  Score=65.14  Aligned_cols=99  Identities=15%  Similarity=0.243  Sum_probs=56.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      ..-+.|+|..|+|||.||.++++.+..+-..+.|+.           ...+...+-......       .....+ +.+ 
T Consensus       156 ~~gl~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~-----------~~~l~~~lk~~~~~~-------~~~~~l-~~l-  215 (306)
T PRK08939        156 VKGLYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH-----------FPEFIRELKNSISDG-------SVKEKI-DAV-  215 (306)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE-----------HHHHHHHHHHHHhcC-------cHHHHH-HHh-
Confidence            467889999999999999999998866544445554           123444443333211       112222 222 


Q ss_pred             cCceEEEecCCC--Chhhhh--hhhcCC-C-CCCCCeEEEEEcCc
Q 005191          285 RMKVFIVLDDVN--KYGQLE--YFDGGL-D-RFGPGSRIIVTTRD  323 (709)
Q Consensus       285 ~kr~LLVLDdv~--~~~~~~--~l~~~l-~-~~~~gsrIIvTTR~  323 (709)
                      .+-=||||||+.  ....|.  .++..+ . ....+..+|+||--
T Consensus       216 ~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        216 KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            245689999994  334443  233322 1 11245567778754

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

Probab=96.78  E-value=0.012  Score=66.59  Aligned_cols=161  Identities=14%  Similarity=0.121  Sum_probs=85.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      ...|.|.|+.|+|||+||+++++.+...  ..+++..+....-....+..+++.+                ...+.+.+.
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~--~~~hv~~v~Cs~l~~~~~e~iQk~l----------------~~vfse~~~  492 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKD--LIAHVEIVSCSTLDGSSLEKIQKFL----------------NNVFSEALW  492 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccc--cceEEEEEechhccchhHHHHHHHH----------------HHHHHHHHh
Confidence            4678899999999999999999987643  2333332221111112233333322                223444566


Q ss_pred             cCceEEEecCCCChh--------hh-------hhhh----cCCCCCCCCeEEEEEcCchhhhhh-----cCcceEEEecC
Q 005191          285 RMKVFIVLDDVNKYG--------QL-------EYFD----GGLDRFGPGSRIIVTTRDKTILER-----YGTHRIYEVEG  340 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~--------~~-------~~l~----~~l~~~~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~  340 (709)
                      ..+-++||||++...        ++       ..++    ..+...+..-.+|.|.....-...     .-...+..+++
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~a  572 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPA  572 (952)
T ss_pred             hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCC
Confidence            789999999995211        11       1111    111111222244555544422211     11235678888


Q ss_pred             CChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHH
Q 005191          341 LNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVL  385 (709)
Q Consensus       341 L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~l  385 (709)
                      +...+-.++++... .... .....+...-+..+|+|. |.-++++
T Consensus       573 p~~~~R~~IL~~~~-s~~~-~~~~~~dLd~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  573 PAVTRRKEILTTIF-SKNL-SDITMDDLDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             cchhHHHHHHHHHH-Hhhh-hhhhhHHHHHHHHhcCCccchhHHHH
Confidence            88888777776554 2222 122233344588888874 5555544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.77  E-value=0.023  Score=58.94  Aligned_cols=24  Identities=38%  Similarity=0.335  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.+.|.|++|+|||+||+.+++..
T Consensus        22 ~~vLL~G~~GtGKT~lA~~la~~l   45 (262)
T TIGR02640        22 YPVHLRGPAGTGKTTLAMHVARKR   45 (262)
T ss_pred             CeEEEEcCCCCCHHHHHHHHHHHh
Confidence            456789999999999999998754

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).

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.76  E-value=0.0076  Score=72.73  Aligned_cols=133  Identities=16%  Similarity=0.153  Sum_probs=72.3

Q ss_pred             CCCccccchhhhHHHhhhhcc------CCC-ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHH
Q 005191          181 SDGLIGLESHVEQVRSLLAIG------LPD-VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLV  253 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~------~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~  253 (709)
                      ...++|-+.-++.+...+...      .+. ...+.++|++|+|||+||+.+++.+...-...+-+. ..+.... ....
T Consensus       508 ~~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d-~s~~~~~-~~~~  585 (821)
T CHL00095        508 HKRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLD-MSEYMEK-HTVS  585 (821)
T ss_pred             cCcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEE-chhcccc-ccHH
Confidence            367899998888888877521      111 346778999999999999999987643222222222 2221111 1111


Q ss_pred             HHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCc-eEEEecCCCC--hhhhhhhhcCCCCC-----------CCCeEEEE
Q 005191          254 HLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMK-VFIVLDDVNK--YGQLEYFDGGLDRF-----------GPGSRIIV  319 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr-~LLVLDdv~~--~~~~~~l~~~l~~~-----------~~gsrIIv  319 (709)
                      .    +   ++....-... +....+.+.++.++ .+++||+++.  .+.++.++..+...           ...+-+|+
T Consensus       586 ~----l---~g~~~gyvg~-~~~~~l~~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~  657 (821)
T CHL00095        586 K----L---IGSPPGYVGY-NEGGQLTEAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIM  657 (821)
T ss_pred             H----h---cCCCCcccCc-CccchHHHHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEE
Confidence            1    1   1211111111 11223455555555 5899999974  44555555544321           13455666


Q ss_pred             EcCc
Q 005191          320 TTRD  323 (709)
Q Consensus       320 TTR~  323 (709)
                      ||..
T Consensus       658 Tsn~  661 (821)
T CHL00095        658 TSNL  661 (821)
T ss_pred             eCCc
Confidence            6654

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

Probab=96.74  E-value=0.0056  Score=71.28  Aligned_cols=118  Identities=19%  Similarity=0.224  Sum_probs=73.9

Q ss_pred             CCccccchhhhHHHhhhhcc-------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIG-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      ..++|-+.-+..+.+.+...       +.........|+.|+|||-||++++..+-..=+..+-+. .++.         
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~D-MSEy---------  560 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRID-MSEY---------  560 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeec-hHHH---------
Confidence            57899999999888877531       122467778999999999999999997644323333332 2221         


Q ss_pred             HHHHHHHHh-cCCCCCCCCCChhHHHHHHHccCce-EEEecCCCC--hhhhhhhhcCCCC
Q 005191          255 LRNQVLSKL-LGENFDIGTPKIPQYIRDRLQRMKV-FIVLDDVNK--YGQLEYFDGGLDR  310 (709)
Q Consensus       255 l~~~ll~~l-~~~~~~~~~~~~~~~l~~~L~~kr~-LLVLDdv~~--~~~~~~l~~~l~~  310 (709)
                      .-+.-++.+ +.+..-..-++ --.|-+..+++|| +|.||+++.  ++..+-|+..+..
T Consensus       561 ~EkHsVSrLIGaPPGYVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         561 MEKHSVSRLIGAPPGYVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             HHHHHHHHHhCCCCCCceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence            223344555 33333233333 3345566677877 888999964  5666666665543

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.73  E-value=0.0037  Score=66.82  Aligned_cols=35  Identities=14%  Similarity=0.272  Sum_probs=28.8

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+.++|.+|+|||.||..+++.+..+-..++|+.
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            67899999999999999999998766544555655

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.73  E-value=0.0072  Score=73.00  Aligned_cols=51  Identities=22%  Similarity=0.266  Sum_probs=39.4

Q ss_pred             CCCccccchhhhHHHhhhhcc------CCC-ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          181 SDGLIGLESHVEQVRSLLAIG------LPD-VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~------~~~-~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++|-+.-++.+...+...      .+. ...+.++|++|+|||+||+.+++.+..
T Consensus       567 ~~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~  624 (857)
T PRK10865        567 HHRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFD  624 (857)
T ss_pred             CCeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhc
Confidence            356899999999888877632      111 247889999999999999999986543

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.67  E-value=0.014  Score=62.42  Aligned_cols=146  Identities=15%  Similarity=0.099  Sum_probs=81.0

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc---------------------cceEEEeee
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF---------------------EGKYFMANV  242 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---------------------~~~~~v~~~  242 (709)
                      ++|-+.....+..+..........+.++|++|+||||+|..+++.+....                     +....+. .
T Consensus         3 ~~~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~-~   81 (325)
T COG0470           3 LVPWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELN-P   81 (325)
T ss_pred             cccchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEec-c
Confidence            56667777777777764433455699999999999999999999765322                     1112221 0


Q ss_pred             cccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEE
Q 005191          243 REESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVT  320 (709)
Q Consensus       243 ~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvT  320 (709)
                      .+.... ....+..+.+.........               .++.-++++|+++..  +.-..+...+......+.+|++
T Consensus        82 s~~~~~-~i~~~~vr~~~~~~~~~~~---------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~  145 (325)
T COG0470          82 SDLRKI-DIIVEQVRELAEFLSESPL---------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILI  145 (325)
T ss_pred             cccCCC-cchHHHHHHHHHHhccCCC---------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEE
Confidence            000000 0112222222222211110               245679999999753  3455666666555678888888


Q ss_pred             cCch-hhhhhc-CcceEEEecCCChHHH
Q 005191          321 TRDK-TILERY-GTHRIYEVEGLNCNEA  346 (709)
Q Consensus       321 TR~~-~v~~~~-~~~~~~~L~~L~~~ea  346 (709)
                      |.+. .+.... +.-..+++.+.+..+.
T Consensus       146 ~n~~~~il~tI~SRc~~i~f~~~~~~~~  173 (325)
T COG0470         146 TNDPSKILPTIRSRCQRIRFKPPSRLEA  173 (325)
T ss_pred             cCChhhccchhhhcceeeecCCchHHHH
Confidence            8744 233322 1224566666444333

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []

Probab=96.66  E-value=0.0059  Score=60.44  Aligned_cols=127  Identities=19%  Similarity=0.200  Sum_probs=60.4

Q ss_pred             cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh--hhcccceEEEeeeccccccc----CCHH----HHH
Q 005191          187 LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF--SQKFEGKYFMANVREESEKC----GGLV----HLR  256 (709)
Q Consensus       187 R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~--~~~f~~~~~v~~~~~~~~~~----~~l~----~l~  256 (709)
                      +..+-....+.|.    ...++.+.|++|.|||.||.+.+-+.  ...|+..++....-+..+..    .++.    -..
T Consensus         5 ~~~~Q~~~~~al~----~~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~   80 (205)
T PF02562_consen    5 KNEEQKFALDALL----NNDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYL   80 (205)
T ss_dssp             -SHHHHHHHHHHH----H-SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTT
T ss_pred             CCHHHHHHHHHHH----hCCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHH
Confidence            3344445555555    34689999999999999999888643  35577777765433211110    0000    011


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHH----------HHcc---CceEEEecCCC--ChhhhhhhhcCCCCCCCCeEEEEEc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRD----------RLQR---MKVFIVLDDVN--KYGQLEYFDGGLDRFGPGSRIIVTT  321 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~----------~L~~---kr~LLVLDdv~--~~~~~~~l~~~l~~~~~gsrIIvTT  321 (709)
                      .-+...+..-.    ..+..+.+.+          ++++   ...++|+|++.  +..++..++...   +.||++|++-
T Consensus        81 ~p~~d~l~~~~----~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR~---g~~skii~~G  153 (205)
T PF02562_consen   81 RPIYDALEELF----GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTRI---GEGSKIIITG  153 (205)
T ss_dssp             HHHHHHHTTTS-----TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTTB----TT-EEEEEE
T ss_pred             HHHHHHHHHHh----ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHccc---CCCcEEEEec
Confidence            11222221110    1111222221          2334   35799999994  566788776654   7899999987


Q ss_pred             Cch
Q 005191          322 RDK  324 (709)
Q Consensus       322 R~~  324 (709)
                      -..
T Consensus       154 D~~  156 (205)
T PF02562_consen  154 DPS  156 (205)
T ss_dssp             ---
T ss_pred             Cce
Confidence            654

; GO: 0005524 ATP binding; PDB: 3B85_A.

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.63  E-value=0.0091  Score=71.96  Aligned_cols=50  Identities=18%  Similarity=0.261  Sum_probs=39.0

Q ss_pred             CCccccchhhhHHHhhhhcc-------CCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          182 DGLIGLESHVEQVRSLLAIG-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..++|-+.-++.+.+.+...       +....++.++|++|+|||.||+.+++.+..
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~  622 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYG  622 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhC
Confidence            57889999888888877421       112457889999999999999999887643

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK04132 replication factor C small subunit; Provisional

Probab=96.61  E-value=0.11  Score=62.00  Aligned_cols=155  Identities=14%  Similarity=0.142  Sum_probs=90.8

Q ss_pred             Ec--cCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHHHHHHHHHhc-CCCCCCCCCChhHHHHHHHccC
Q 005191          211 WG--MGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHLRNQVLSKLL-GENFDIGTPKIPQYIRDRLQRM  286 (709)
Q Consensus       211 ~G--~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~-~~~~~~~~~~~~~~l~~~L~~k  286 (709)
                      .|  |.++||||+|..+++++-. .+...+.-.+..+.    .+.. ..++++.... .....              ..+
T Consensus       570 ~G~lPh~lGKTT~A~ala~~l~g~~~~~~~lElNASd~----rgid-~IR~iIk~~a~~~~~~--------------~~~  630 (846)
T PRK04132        570 GGNLPTVLHNTTAALALARELFGENWRHNFLELNASDE----RGIN-VIREKVKEFARTKPIG--------------GAS  630 (846)
T ss_pred             cCCCCCcccHHHHHHHHHHhhhcccccCeEEEEeCCCc----ccHH-HHHHHHHHHHhcCCcC--------------CCC
Confidence            36  7799999999999998632 23332222222211    2222 2333333221 11100              123


Q ss_pred             ceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCCh
Q 005191          287 KVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPE  362 (709)
Q Consensus       287 r~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~  362 (709)
                      .-++|||+++..  ++...++..+......+++|++|.+. .+.... +....+++.+++.++..+.+...+-....  .
T Consensus       631 ~KVvIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi--~  708 (846)
T PRK04132        631 FKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL--E  708 (846)
T ss_pred             CEEEEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCC--C
Confidence            569999999864  46666776666555677777766654 333222 23368899999999988887765532221  1


Q ss_pred             hhHHHHHHHHHHhcCCchHHHHHh
Q 005191          363 DLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       363 ~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ...+....|++.++|.+.....+.
T Consensus       709 i~~e~L~~Ia~~s~GDlR~AIn~L  732 (846)
T PRK04132        709 LTEEGLQAILYIAEGDMRRAINIL  732 (846)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            124568899999999885544433

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.61  E-value=0.0065  Score=61.48  Aligned_cols=48  Identities=21%  Similarity=0.263  Sum_probs=37.0

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-++|..+-....++.|+|.+|+|||++|.+++.........++|+.
T Consensus        11 ~lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         11 MLDELLGGGFERGTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            344555544455789999999999999999999987766656677776

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.59  E-value=0.021  Score=61.04  Aligned_cols=85  Identities=15%  Similarity=0.170  Sum_probs=48.9

Q ss_pred             ceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCCh
Q 005191          287 KVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPE  362 (709)
Q Consensus       287 r~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~  362 (709)
                      +-++|+|+++.  ......++..+.....+..+|++|.+.. +.... +.-..+.+.+++.+++.+.+....    . ..
T Consensus       114 ~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~-~~  188 (325)
T PRK08699        114 LRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERG----V-AE  188 (325)
T ss_pred             ceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcC----C-Cc
Confidence            34556688864  3344444444433334566777777653 33322 123678999999999998886542    1 11


Q ss_pred             hhHHHHHHHHHHhcCCchH
Q 005191          363 DLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       363 ~~~~~~~~Iv~~~gGlPLA  381 (709)
                      .     ...+..++|.|+.
T Consensus       189 ~-----~~~l~~~~g~p~~  202 (325)
T PRK08699        189 P-----EERLAFHSGAPLF  202 (325)
T ss_pred             H-----HHHHHHhCCChhh
Confidence            1     1123568899964

>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=0.0018  Score=58.44  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|.|++|+||||+|+.+++++
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999875

...

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

Probab=96.57  E-value=0.0062  Score=68.99  Aligned_cols=52  Identities=27%  Similarity=0.491  Sum_probs=43.0

Q ss_pred             CCccccchhhhHHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          182 DGLIGLESHVEQVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ..-+|.++-.+.+.+.+.-    ++-+..+++.+|++|+|||++|+.+++-+...|
T Consensus       411 eDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF  466 (906)
T KOG2004|consen  411 EDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF  466 (906)
T ss_pred             ccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce
Confidence            4568998888888888753    445678999999999999999999999876554

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.56  E-value=0.024  Score=59.17  Aligned_cols=174  Identities=19%  Similarity=0.206  Sum_probs=99.4

Q ss_pred             CCCCccccchhhhHHHhhhhcc--CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc-cCCHHHHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIG--LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK-CGGLVHLR  256 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~-~~~l~~l~  256 (709)
                      +-..++|-.++-..+..++...  -++..-+.|+|+.|.|||+|......+ .+.+.....+..+.+.... .-.+..+.
T Consensus        22 ~~~~l~g~~~~~~~l~~~lkqt~~~gEsnsviiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~  100 (408)
T KOG2228|consen   22 PHINLFGVQDEQKHLSELLKQTILHGESNSVIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGIT  100 (408)
T ss_pred             CCcceeehHHHHHHHHHHHHHHHHhcCCCceEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHH
Confidence            3467999999999998888642  234567889999999999998877776 4455555555545443221 02344455


Q ss_pred             HHHHHHhcCCCCCC-CCCChhHHHHHHHcc------CceEEEecCCCChh----h--hhhhhc-CCCCCCCCeEEEEEcC
Q 005191          257 NQVLSKLLGENFDI-GTPKIPQYIRDRLQR------MKVFIVLDDVNKYG----Q--LEYFDG-GLDRFGPGSRIIVTTR  322 (709)
Q Consensus       257 ~~ll~~l~~~~~~~-~~~~~~~~l~~~L~~------kr~LLVLDdv~~~~----~--~~~l~~-~l~~~~~gsrIIvTTR  322 (709)
                      +++..++....... +-.+....+...|..      .+++.|+|..+--.    |  +-.+.. .-....|-+-|-+|||
T Consensus       101 rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttr  180 (408)
T KOG2228|consen  101 RQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTR  180 (408)
T ss_pred             HHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeecc
Confidence            55544442221111 122234444444432      46888998875311    1  111111 1112245566778998


Q ss_pred             chhh-------hhhcCcceEEEecCCChHHHHHHhhhcc
Q 005191          323 DKTI-------LERYGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       323 ~~~v-------~~~~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      -...       -...+...++-++.++.++-..+++...
T Consensus       181 ld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  181 LDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             ccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            7622       1222223466667778888777776655

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.56  E-value=0.0098  Score=63.92  Aligned_cols=100  Identities=19%  Similarity=0.170  Sum_probs=59.5

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhccc-ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCC
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIG  271 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~  271 (709)
                      .+++.+..- ...+.+.|+|.+|+|||||++.+++.+..+.+ ..+++..+.+-   .....++.+.+...+.....+..
T Consensus       122 RvID~l~Pi-GkGQR~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER---~~EV~df~~~i~~~Vvast~de~  197 (380)
T PRK12608        122 RVVDLVAPI-GKGQRGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDER---PEEVTDMRRSVKGEVYASTFDRP  197 (380)
T ss_pred             hhhhheeec-CCCceEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCC---CCCHHHHHHHHhhhEEeecCCCC
Confidence            355555532 23356689999999999999999998876553 33344334332   24567777777665543322211


Q ss_pred             CCC---hh---HHHHHHH--ccCceEEEecCCC
Q 005191          272 TPK---IP---QYIRDRL--QRMKVFIVLDDVN  296 (709)
Q Consensus       272 ~~~---~~---~~l~~~L--~~kr~LLVLDdv~  296 (709)
                      ...   ..   ..+.+++  ++++++||+|++.
T Consensus       198 ~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        198 PDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            111   11   1111222  4689999999994

>PRK08118 topology modulation protein; Reviewed

Probab=96.56  E-value=0.0045  Score=59.60  Aligned_cols=32  Identities=22%  Similarity=0.449  Sum_probs=25.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh---cccceEE
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ---KFEGKYF  238 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~---~f~~~~~  238 (709)
                      .|.|+|++|+||||||+.+++.+.-   +++...|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            5889999999999999999997543   3555554

>PRK04296 thymidine kinase; Provisional

Probab=96.51  E-value=0.0038  Score=61.50  Aligned_cols=109  Identities=17%  Similarity=0.133  Sum_probs=59.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCC--CCCCC-hhHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFD--IGTPK-IPQYIRDR  282 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~--~~~~~-~~~~l~~~  282 (709)
                      .++.|+|+.|.||||+|..++.+...+...+.++. .. .... ..    ...+.+.++.....  ....+ ....+.+ 
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k-~~-~d~~-~~----~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-   74 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK-PA-IDDR-YG----EGKVVSRIGLSREAIPVSSDTDIFELIEE-   74 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe-cc-cccc-cc----CCcEecCCCCcccceEeCChHHHHHHHHh-
Confidence            47789999999999999999998766544444332 10 0000 11    11223333211111  11111 3333333 


Q ss_pred             HccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          283 LQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       283 L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      ..++.-+||+|.+.-  .+++..+...+.  ..|..||+|.++.
T Consensus        75 ~~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~  116 (190)
T PRK04296         75 EGEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDT  116 (190)
T ss_pred             hCCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCc
Confidence            233556999999953  333444443322  4678899999884

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

Probab=96.50  E-value=0.048  Score=65.13  Aligned_cols=159  Identities=16%  Similarity=0.188  Sum_probs=85.3

Q ss_pred             CCccccchhhhHHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      ...+|.++-.+.+.++|..    .......+.++|++|+||||+|+.++..+...|-.   +. .....    +...+..
T Consensus       322 ~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~---i~-~~~~~----d~~~i~g  393 (784)
T PRK10787        322 TDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVR---MA-LGGVR----DEAEIRG  393 (784)
T ss_pred             hhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---EE-cCCCC----CHHHhcc
Confidence            4589999999999888763    12245689999999999999999999876543311   11 11111    1111110


Q ss_pred             HHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChhh------hhhhhcCCCCC---------------CCCeE
Q 005191          258 QVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQ------LEYFDGGLDRF---------------GPGSR  316 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~------~~~l~~~l~~~---------------~~gsr  316 (709)
                      .- ...    .+.........+... ...+-+++||.++....      ...++..+...               -.+..
T Consensus       394 ~~-~~~----~g~~~G~~~~~l~~~-~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~  467 (784)
T PRK10787        394 HR-RTY----IGSMPGKLIQKMAKV-GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVM  467 (784)
T ss_pred             ch-hcc----CCCCCcHHHHHHHhc-CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceE
Confidence            00 000    000001123333322 22344788999964221      23343333210               13344


Q ss_pred             EEEEcCchhhhhh-cCcceEEEecCCChHHHHHHhhhcc
Q 005191          317 IIVTTRDKTILER-YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       317 IIvTTR~~~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      +|.|+....+... .+...++++.+++.+|-.++..++.
T Consensus       468 ~i~TaN~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        468 FVATSNSMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             EEEcCCCCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            4555544322221 1233678999999999988887766

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

Probab=96.50  E-value=0.0088  Score=70.79  Aligned_cols=49  Identities=16%  Similarity=0.212  Sum_probs=38.7

Q ss_pred             CCccccchhhhHHHhhhhcc-------CCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          182 DGLIGLESHVEQVRSLLAIG-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..++|-+..++.|.+.+...       ......+.++|++|+|||.||+.++..+.
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhC
Confidence            46899999988888877631       11245788999999999999999988763

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=96.49  E-value=0.046  Score=60.65  Aligned_cols=29  Identities=31%  Similarity=0.429  Sum_probs=25.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+.++.++|++|+||||+|..++..+..+
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            46899999999999999999999887654

>PRK14974 cell division protein FtsY; Provisional

Probab=96.46  E-value=0.06  Score=57.65  Aligned_cols=29  Identities=21%  Similarity=0.281  Sum_probs=25.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ++.++.++|++|+||||++..++..+..+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            46899999999999999999998876654

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.43  E-value=0.0078  Score=60.09  Aligned_cols=44  Identities=23%  Similarity=0.316  Sum_probs=35.1

Q ss_pred             hhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          197 LLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       197 ~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +|..+-+..+++.|+|++|+|||+++.+++......-..++|+.
T Consensus         4 ~l~GGi~~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237         4 LLGGGVERGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             hhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34444456789999999999999999999987766656777877

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

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.43  E-value=0.0026  Score=68.02  Aligned_cols=51  Identities=14%  Similarity=0.279  Sum_probs=42.5

Q ss_pred             CCCccccchhhhHHHhhhhcc----CCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          181 SDGLIGLESHVEQVRSLLAIG----LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++|.++.++++.+++...    +...+++.|+|++|+||||||..+++.+..
T Consensus        50 ~~~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~l~~  104 (361)
T smart00763       50 DHDFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRGLEE  104 (361)
T ss_pred             chhccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            347999999999999988652    234688999999999999999999987644

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

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.41  E-value=0.0057  Score=63.18  Aligned_cols=91  Identities=15%  Similarity=0.244  Sum_probs=56.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCC-C---CCCCCCCh----
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGE-N---FDIGTPKI----  275 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~-~---~~~~~~~~----  275 (709)
                      ..+.++|.|.+|+|||+|+..+++.++.+|+..+++..+++...   ...++.+.+...-... .   ....+...    
T Consensus        68 ~GQr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~---Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~  144 (274)
T cd01133          68 KGGKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTR---EGNDLYHEMKESGVLSKTALVYGQMNEPPGARA  144 (274)
T ss_pred             cCCEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcH---HHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            35688999999999999999999998888887787776655433   3444444444321000 0   00111111    


Q ss_pred             -----hHHHHHHH--c-cCceEEEecCCCC
Q 005191          276 -----PQYIRDRL--Q-RMKVFIVLDDVNK  297 (709)
Q Consensus       276 -----~~~l~~~L--~-~kr~LLVLDdv~~  297 (709)
                           .-.+.+++  + ++.+|+++||+-.
T Consensus       145 ~~~~~a~~~AEyfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         145 RVALTGLTMAEYFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHHHHHHHHHHHHhcCCeEEEEEeChhH
Confidence                 11233444  3 7899999999843

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>TIGR00763 lon ATP-dependent protease La

Probab=96.41  E-value=0.025  Score=67.97  Aligned_cols=51  Identities=24%  Similarity=0.404  Sum_probs=38.7

Q ss_pred             CCccccchhhhHHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          182 DGLIGLESHVEQVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+|.+.-.+.+.+++..    +......+.++|++|+|||++|+.+++.+...
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~  374 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRK  374 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCC
Confidence            3477888888888776542    22234579999999999999999999987544

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=96.41  E-value=0.01  Score=60.47  Aligned_cols=48  Identities=21%  Similarity=0.247  Sum_probs=35.4

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-+.|..+-+...++.|+|.+|+|||+||.+++.....+-..++|+.
T Consensus        13 ~LD~~l~gG~~~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         13 ELDRKLGGGIPFPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             HHHHhhCCCCcCCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            444555555556789999999999999999999776444445566665

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.40  E-value=0.0046  Score=58.38  Aligned_cols=34  Identities=26%  Similarity=0.299  Sum_probs=26.8

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ++.|+|++|+|||+++..++.....+-...+|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            3679999999999999999987765444555555

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.

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.36  E-value=0.075  Score=57.54  Aligned_cols=37  Identities=30%  Similarity=0.398  Sum_probs=28.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.++|+|+|++|+||||++..++..+..+-..+.++.
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~  276 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFIT  276 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEe
Confidence            3589999999999999999999987754432333443

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.32  E-value=0.02  Score=67.18  Aligned_cols=128  Identities=17%  Similarity=0.253  Sum_probs=70.8

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR  285 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~  285 (709)
                      +-+.|+|++|.|||++|+.++.+....|   +.+. ..          .+..    ...+    .........+......
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f---~~is-~~----------~~~~----~~~g----~~~~~~~~~f~~a~~~  243 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTIS-GS----------DFVE----MFVG----VGASRVRDMFEQAKKA  243 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCE---EEEe-hH----------HhHH----hhhc----ccHHHHHHHHHHHHhc
Confidence            4489999999999999999988754332   1111 00          0110    0000    0000122233333345


Q ss_pred             CceEEEecCCCChh----------------hhhhhhcCCCCC--CCCeEEEEEcCchhhhhh-----cCcceEEEecCCC
Q 005191          286 MKVFIVLDDVNKYG----------------QLEYFDGGLDRF--GPGSRIIVTTRDKTILER-----YGTHRIYEVEGLN  342 (709)
Q Consensus       286 kr~LLVLDdv~~~~----------------~~~~l~~~l~~~--~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~  342 (709)
                      .+++|+||+++...                .+..++..+..+  ..+.-+|.||..++....     -..++.+.++..+
T Consensus       244 ~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd  323 (644)
T PRK10733        244 APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD  323 (644)
T ss_pred             CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCC
Confidence            78999999996431                123333333222  234455667766643321     1234678888888


Q ss_pred             hHHHHHHhhhccc
Q 005191          343 CNEALRLFCSCAF  355 (709)
Q Consensus       343 ~~ea~~Lf~~~a~  355 (709)
                      .++-.+++..+..
T Consensus       324 ~~~R~~Il~~~~~  336 (644)
T PRK10733        324 VRGREQILKVHMR  336 (644)
T ss_pred             HHHHHHHHHHHhh
Confidence            8888888877663

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

Probab=96.32  E-value=0.012  Score=66.28  Aligned_cols=151  Identities=23%  Similarity=0.269  Sum_probs=82.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRD  281 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~  281 (709)
                      ..++-|.++|+||+|||++|+.+++...-+|-.+         ..         .++++..-++     .+. +.+.+++
T Consensus       466 ~ppkGVLlyGPPGC~KT~lAkalAne~~~nFlsv---------kg---------pEL~sk~vGe-----SEr~ir~iF~k  522 (693)
T KOG0730|consen  466 SPPKGVLLYGPPGCGKTLLAKALANEAGMNFLSV---------KG---------PELFSKYVGE-----SERAIREVFRK  522 (693)
T ss_pred             CCCceEEEECCCCcchHHHHHHHhhhhcCCeeec---------cC---------HHHHHHhcCc-----hHHHHHHHHHH
Confidence            4578899999999999999999999866555221         00         0112221110     011 2222333


Q ss_pred             HHccCceEEEecCCCChh-------------hhhhhhcCCCCCCCC--eEEEEEc-Cchhhhhhc----CcceEEEecCC
Q 005191          282 RLQRMKVFIVLDDVNKYG-------------QLEYFDGGLDRFGPG--SRIIVTT-RDKTILERY----GTHRIYEVEGL  341 (709)
Q Consensus       282 ~L~~kr~LLVLDdv~~~~-------------~~~~l~~~l~~~~~g--srIIvTT-R~~~v~~~~----~~~~~~~L~~L  341 (709)
                      .-+-.+++|.||.++...             .+..++..+.-....  .-||-.| |...+-..+    ..++.+.++.-
T Consensus       523 AR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplP  602 (693)
T KOG0730|consen  523 ARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLP  602 (693)
T ss_pred             HhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCc
Confidence            334467899999886321             233444444322222  2333333 433322221    24578888888


Q ss_pred             ChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          342 NCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       342 ~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      +.+.-.++|..++-+-...+.   -...+|++++.|.-
T Consensus       603 D~~aR~~Ilk~~~kkmp~~~~---vdl~~La~~T~g~S  637 (693)
T KOG0730|consen  603 DLEARLEILKQCAKKMPFSED---VDLEELAQATEGYS  637 (693)
T ss_pred             cHHHHHHHHHHHHhcCCCCcc---ccHHHHHHHhccCC
Confidence            888889999888733222221   12455666666553

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.30  E-value=0.0041  Score=58.09  Aligned_cols=35  Identities=26%  Similarity=0.350  Sum_probs=28.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEE
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFM  239 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v  239 (709)
                      .--|.|+|++|+||||+++.+++.++.. |...-|+
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~   40 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGGFI   40 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcCceeeeEE
Confidence            3468899999999999999999988776 6554443

>cd01394 radB RadB

Probab=96.30  E-value=0.019  Score=57.81  Aligned_cols=49  Identities=20%  Similarity=0.250  Sum_probs=36.7

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..|..+|..+-+...++.|.|.+|+||||||.+++.....+-..++|+.
T Consensus         6 ~~LD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394           6 KGLDELLGGGVERGTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             hHHHHHhcCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3455555544456789999999999999999999988765545566665

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK06696 uridine kinase; Validated

Probab=96.30  E-value=0.0063  Score=61.56  Aligned_cols=46  Identities=20%  Similarity=0.255  Sum_probs=35.7

Q ss_pred             cchhhhHHHhhhhc-cCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          187 LESHVEQVRSLLAI-GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       187 R~~el~~L~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      |.+.+++|.+.+.. ..++..+|+|.|.+|+||||||+.+++.+...
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            55566666666643 34568899999999999999999999987543

>PRK07261 topology modulation protein; Provisional

Probab=96.29  E-value=0.016  Score=56.01  Aligned_cols=23  Identities=30%  Similarity=0.546  Sum_probs=20.5

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|.|+|++|+||||||+.+....
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.29  E-value=0.018  Score=58.18  Aligned_cols=48  Identities=23%  Similarity=0.276  Sum_probs=34.8

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc------cceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF------EGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~v~  240 (709)
                      .|.++|..+-+...++.|+|.+|+|||+||.+++.......      ..++|+.
T Consensus         7 ~lD~~l~GG~~~g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393           7 ALDELLGGGIPTGRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             HHHHHhCCCCcCCcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            34444544445578999999999999999999988754444      4556666

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PRK07667 uridine kinase; Provisional

Probab=96.26  E-value=0.0084  Score=59.20  Aligned_cols=42  Identities=19%  Similarity=0.287  Sum_probs=32.8

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ++.+.+.+....+...+|+|.|.+|.||||+|..+...+...
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            345556665545566899999999999999999999987654

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.25  E-value=0.014  Score=55.36  Aligned_cols=116  Identities=16%  Similarity=0.126  Sum_probs=60.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHh----cCCCCCC--CCC-C----
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKL----LGENFDI--GTP-K----  274 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l----~~~~~~~--~~~-~----  274 (709)
                      .+|-|++..|.||||+|...+-+...+-..+.++.-+.... . .+-...++.+ ..+    .+.....  .+. +    
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~-~-~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGW-K-YGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCC-c-cCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            46778888899999999999887665543444433222211 1 2223333333 111    0100000  011 1    


Q ss_pred             ---hhHHHHHHHcc-CceEEEecCCCC-----hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          275 ---IPQYIRDRLQR-MKVFIVLDDVNK-----YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       275 ---~~~~l~~~L~~-kr~LLVLDdv~~-----~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                         ..+..++.+.. .-=|||||++..     .-..+.+...+....++..||+|.|+.
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~  138 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNA  138 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCC
Confidence               11222333333 446999999832     223334444444345677899999986

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=96.25  E-value=0.0091  Score=59.04  Aligned_cols=87  Identities=16%  Similarity=0.163  Sum_probs=47.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCC-ChhHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTP-KIPQYIRDRL  283 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~-~~~~~l~~~L  283 (709)
                      ++++.++|+.|+||||.+..++.+...+-..+..+. .... .  .+..+-++...+.++-+....... +..+.+++.+
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis-~D~~-R--~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l   76 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS-ADTY-R--IGAVEQLKTYAEILGVPFYVARTESDPAEIAREAL   76 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE-ESTS-S--THHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeec-CCCC-C--ccHHHHHHHHHHHhccccchhhcchhhHHHHHHHH
Confidence            478999999999999999999988766633344443 2111 1  233445555566664332222211 2223233222


Q ss_pred             ---cc-CceEEEecCC
Q 005191          284 ---QR-MKVFIVLDDV  295 (709)
Q Consensus       284 ---~~-kr~LLVLDdv  295 (709)
                         .. +-=++++|-.
T Consensus        77 ~~~~~~~~D~vlIDT~   92 (196)
T PF00448_consen   77 EKFRKKGYDLVLIDTA   92 (196)
T ss_dssp             HHHHHTTSSEEEEEE-
T ss_pred             HHHhhcCCCEEEEecC
Confidence               22 3357888876

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>PHA00729 NTP-binding motif containing protein

Probab=96.22  E-value=0.02  Score=57.47  Aligned_cols=27  Identities=33%  Similarity=0.242  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +...+.|+|.+|+||||||..+++++.
T Consensus        16 ~f~nIlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         16 GFVSAVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            445789999999999999999998754

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.20  E-value=0.0027  Score=64.33  Aligned_cols=36  Identities=25%  Similarity=0.387  Sum_probs=29.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .-.++|.|.+|.|||||+..+.......|+....+.
T Consensus        13 ~fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   13 PFRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            346778999999999999999998888996665554

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

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

Probab=96.18  E-value=0.0093  Score=63.57  Aligned_cols=29  Identities=31%  Similarity=0.597  Sum_probs=25.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      -++.++|||++|+|||.+|+.++..+...
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~  175 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIE  175 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCC
Confidence            47899999999999999999999986544

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.17  E-value=0.11  Score=59.40  Aligned_cols=166  Identities=13%  Similarity=0.135  Sum_probs=99.6

Q ss_pred             CCCCccccchhhhHHHhhhhc--cC-CCceEEEEEccCCCchhHHHHHHHHHhhh-----cccceEEEeeecccccccCC
Q 005191          180 DSDGLIGLESHVEQVRSLLAI--GL-PDVRLVGIWGMGGIGKTTIAGVVFNQFSQ-----KFEGKYFMANVREESEKCGG  251 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~--~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-----~f~~~~~v~~~~~~~~~~~~  251 (709)
                      .+..+-+|+.|..+|.+.+..  .. .....+-|.|.+|.|||+.+..|.+.++.     .-+...|+. +.  .-....
T Consensus       394 vp~sLpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yve-IN--gm~l~~  470 (767)
T KOG1514|consen  394 VPESLPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVE-IN--GLRLAS  470 (767)
T ss_pred             ccccccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEE-Ec--ceeecC
Confidence            677899999999999998864  22 33568899999999999999999986541     123223332 11  111245


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc-----cCceEEEecCCCCh-----hhhhhhhcCCCCC-CCCeEEEEE
Q 005191          252 LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ-----RMKVFIVLDDVNKY-----GQLEYFDGGLDRF-GPGSRIIVT  320 (709)
Q Consensus       252 l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~-----~kr~LLVLDdv~~~-----~~~~~l~~~l~~~-~~gsrIIvT  320 (709)
                      ..++...|...+.+....  .....+.|..+..     .+++++++|+++..     +.+-.+.   .|- .++|+++|.
T Consensus       471 ~~~~Y~~I~~~lsg~~~~--~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~f---dWpt~~~sKLvvi  545 (767)
T KOG1514|consen  471 PREIYEKIWEALSGERVT--WDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNIF---DWPTLKNSKLVVI  545 (767)
T ss_pred             HHHHHHHHHHhcccCccc--HHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHHh---cCCcCCCCceEEE
Confidence            677888888888554322  1114555665554     35789999998532     2223332   222 367776554


Q ss_pred             cC-ch-hhhh---------hcCcceEEEecCCChHHHHHHhhhcc
Q 005191          321 TR-DK-TILE---------RYGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       321 TR-~~-~v~~---------~~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      += +. ....         .+ ....+...|.+.++-.++...+.
T Consensus       546 ~IaNTmdlPEr~l~nrvsSRl-g~tRi~F~pYth~qLq~Ii~~RL  589 (767)
T KOG1514|consen  546 AIANTMDLPERLLMNRVSSRL-GLTRICFQPYTHEQLQEIISARL  589 (767)
T ss_pred             EecccccCHHHHhccchhhhc-cceeeecCCCCHHHHHHHHHHhh
Confidence            42 11 1111         11 12345667777777666666555

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.16  E-value=0.0042  Score=59.83  Aligned_cols=79  Identities=11%  Similarity=0.071  Sum_probs=44.6

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc--
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR--  285 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~--  285 (709)
                      +.|.|.+|.|||++|.+++..   ......|+.....     .+ .++.+.+..............+....+.+.+.+  
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~~-----~d-~em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~   72 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE---LGGPVTYIATAEA-----FD-DEMAERIARHRKRRPAHWRTIETPRDLVSALKELD   72 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccCc-----CC-HHHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcC
Confidence            678999999999999999865   2235556642211     22 234444444332222233333334445555532  


Q ss_pred             CceEEEecCC
Q 005191          286 MKVFIVLDDV  295 (709)
Q Consensus       286 kr~LLVLDdv  295 (709)
                      +.-.+++|.+
T Consensus        73 ~~~~VLIDcl   82 (169)
T cd00544          73 PGDVVLIDCL   82 (169)
T ss_pred             CCCEEEEEcH
Confidence            3447999987

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=96.15  E-value=0.013  Score=62.76  Aligned_cols=47  Identities=28%  Similarity=0.242  Sum_probs=39.1

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..++|+...++++.+.+..-.....-|.|+|.+|+||+++|+.+...
T Consensus         6 ~~liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~   52 (326)
T PRK11608          6 DNLLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYL   52 (326)
T ss_pred             CccEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHh
Confidence            46999999999999888764444567889999999999999988753

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.13  E-value=0.024  Score=64.85  Aligned_cols=47  Identities=30%  Similarity=0.444  Sum_probs=37.7

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.++|.+..++.+...+...  ...-+.|+|++|+|||++|+.+++..
T Consensus        64 f~~iiGqs~~i~~l~~al~~~--~~~~vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        64 FDEIIGQEEGIKALKAALCGP--NPQHVIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             HHHeeCcHHHHHHHHHHHhCC--CCceEEEECCCCCCHHHHHHHHHHHh
Confidence            456899999999998876533  34567899999999999999998743

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.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=96.12  E-value=0.026  Score=58.85  Aligned_cols=36  Identities=19%  Similarity=0.319  Sum_probs=27.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      +.+++.++|++|+||||++..++..+...-..+.++
T Consensus        71 ~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li  106 (272)
T TIGR00064        71 KPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLA  106 (272)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            468999999999999999999998776543333334

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=96.10  E-value=0.012  Score=63.61  Aligned_cols=109  Identities=14%  Similarity=0.176  Sum_probs=64.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      ...+.|.|+.|.||||+...+...+.......++..     .++   ...........+...............++..|+
T Consensus       122 ~g~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~ti-----Edp---~E~~~~~~~~~i~q~evg~~~~~~~~~l~~~lr  193 (343)
T TIGR01420       122 RGLILVTGPTGSGKSTTLASMIDYINKNAAGHIITI-----EDP---IEYVHRNKRSLINQREVGLDTLSFANALRAALR  193 (343)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEE-----cCC---hhhhccCccceEEccccCCCCcCHHHHHHHhhc
Confidence            468999999999999999999887765544554443     110   000000000001111111222336777888899


Q ss_pred             cCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          285 RMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      ..+=.|++|.+.+.+.+.......   ..|..++.|.-..
T Consensus       194 ~~pd~i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~  230 (343)
T TIGR01420       194 EDPDVILIGEMRDLETVELALTAA---ETGHLVFGTLHTN  230 (343)
T ss_pred             cCCCEEEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCC
Confidence            999999999998877666543321   3455566555544

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.

>TIGR01817 nifA Nif-specific regulatory protein

Probab=96.05  E-value=0.046  Score=62.87  Aligned_cols=51  Identities=25%  Similarity=0.285  Sum_probs=41.7

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .....++|....++++.+.+..-......|.|+|.+|+|||++|+.+.+.-
T Consensus       193 ~~~~~liG~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~lA~~ih~~s  243 (534)
T TIGR01817       193 GKEDGIIGKSPAMRQVVDQARVVARSNSTVLLRGESGTGKELIAKAIHYLS  243 (534)
T ss_pred             CccCceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCccHHHHHHHHHHhC
Confidence            345689999999999998887544445567899999999999999998753

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=96.04  E-value=0.02  Score=61.36  Aligned_cols=96  Identities=23%  Similarity=0.235  Sum_probs=57.3

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCC--C
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGEN--F  268 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~--~  268 (709)
                      ..++.+.|..+--...++.|-|.+|||||||..+++.++..+. .+.|+.  ++.+     ..+ .+--...++...  .
T Consensus        79 ~~EldRVLGGG~V~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs--GEES-----~~Q-iklRA~RL~~~~~~l  149 (456)
T COG1066          79 IEELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS--GEES-----LQQ-IKLRADRLGLPTNNL  149 (456)
T ss_pred             hHHHHhhhcCCcccccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe--CCcC-----HHH-HHHHHHHhCCCccce
Confidence            4455566654333467999999999999999999999998776 666665  1111     112 122233333211  1


Q ss_pred             CCCCCChhHHHHHHH-ccCceEEEecCC
Q 005191          269 DIGTPKIPQYIRDRL-QRMKVFIVLDDV  295 (709)
Q Consensus       269 ~~~~~~~~~~l~~~L-~~kr~LLVLDdv  295 (709)
                      ..-.+.-.+.+.+.+ +.++-++|+|-+
T Consensus       150 ~l~aEt~~e~I~~~l~~~~p~lvVIDSI  177 (456)
T COG1066         150 YLLAETNLEDIIAELEQEKPDLVVIDSI  177 (456)
T ss_pred             EEehhcCHHHHHHHHHhcCCCEEEEecc
Confidence            111112233343333 468899999998

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

Probab=96.02  E-value=0.0043  Score=57.63  Aligned_cols=44  Identities=23%  Similarity=0.237  Sum_probs=33.1

Q ss_pred             cccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       185 vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ||....++++.+.+..-......|.|+|.+|+||+++|+.++..
T Consensus         1 vG~S~~~~~l~~~l~~~a~~~~pvli~GE~GtGK~~~A~~lh~~   44 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLAKSSSPVLITGEPGTGKSLLARALHRY   44 (138)
T ss_dssp             --SCHHHHHHHHHHHHHHCSSS-EEEECCTTSSHHHHHHCCHHT
T ss_pred             CCCCHHHHHHHHHHHHHhCCCCcEEEEcCCCCCHHHHHHHHHhh
Confidence            57777888888877654344567889999999999999988775

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=96.02  E-value=0.024  Score=53.15  Aligned_cols=112  Identities=16%  Similarity=0.279  Sum_probs=60.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDR  282 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~  282 (709)
                      ...+++|.|..|.|||||++.++..... ....+++.......-- ..                  .+..+ ..-.+.+.
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~~~~~i~~~-~~------------------lS~G~~~rv~lara   84 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGELEP-DEGIVTWGSTVKIGYF-EQ------------------LSGGEKMRLALAKL   84 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCCC-CceEEEECCeEEEEEE-cc------------------CCHHHHHHHHHHHH
Confidence            4578999999999999999998775432 2344444311100000 00                  11111 23334556


Q ss_pred             HccCceEEEecCCC---ChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEe
Q 005191          283 LQRMKVFIVLDDVN---KYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEV  338 (709)
Q Consensus       283 L~~kr~LLVLDdv~---~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L  338 (709)
                      +..++-++++|+-.   +....+.+...+...  +..||++|.+....... .++++.+
T Consensus        85 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~~-~d~v~~l  140 (144)
T cd03221          85 LLENPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQV-ATKIIEL  140 (144)
T ss_pred             HhcCCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHHh-CCEEEEE
Confidence            66778899999873   233333333222221  24678888776554432 2344443

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=96.01  E-value=0.028  Score=54.77  Aligned_cols=121  Identities=16%  Similarity=0.166  Sum_probs=63.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH------HHHHHHHHhcCC------CCCCC
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH------LRNQVLSKLLGE------NFDIG  271 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~------l~~~ll~~l~~~------~~~~~  271 (709)
                      ...+++|.|+.|.|||||.+.++..... ....+++.... ...  .....      ...+++..++-.      ....+
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~~g~~-~~~--~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS   99 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLKP-SSGEILLDGKD-LAS--LSPKELARKIAYVPQALELLGLAHLADRPFNELS   99 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEECCEE-CCc--CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCC
Confidence            4579999999999999999998875432 34445543211 110  01111      111133333211      11111


Q ss_pred             CCC-hhHHHHHHHccCceEEEecCCC---ChhhhhhhhcCCCCC-CC-CeEEEEEcCchhhhh
Q 005191          272 TPK-IPQYIRDRLQRMKVFIVLDDVN---KYGQLEYFDGGLDRF-GP-GSRIIVTTRDKTILE  328 (709)
Q Consensus       272 ~~~-~~~~l~~~L~~kr~LLVLDdv~---~~~~~~~l~~~l~~~-~~-gsrIIvTTR~~~v~~  328 (709)
                      ..+ ..-.+.+.+...+-++++|+--   +....+.+...+... .. +..||++|.+.....
T Consensus       100 ~G~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~  162 (180)
T cd03214         100 GGERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAA  162 (180)
T ss_pred             HHHHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHH
Confidence            112 3334556677788999999973   223333333322211 22 567888888776543

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

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

Probab=95.99  E-value=0.024  Score=56.05  Aligned_cols=51  Identities=24%  Similarity=0.202  Sum_probs=40.3

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      |..-..+||-++-++.+.-.-.+  ++.+-+.|.||+|+||||-+..+++.+-
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~--gnmP~liisGpPG~GKTTsi~~LAr~LL   73 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKE--GNMPNLIISGPPGTGKTTSILCLARELL   73 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHc--CCCCceEeeCCCCCchhhHHHHHHHHHh
Confidence            34445689999888887766553  3577888999999999999999998754

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=95.97  E-value=0.022  Score=62.05  Aligned_cols=49  Identities=24%  Similarity=0.302  Sum_probs=36.2

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .+|.+.|..+-....++.|.|.+|+|||||+.+++......-..++|+.
T Consensus        69 ~eLD~vLgGGi~~GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          69 EELDRVLGGGLVPGSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             HHHHHhhcCCccCCeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3445555544445689999999999999999999988766545566665

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>TIGR00959 ffh signal recognition particle protein

Probab=95.83  E-value=0.22  Score=55.20  Aligned_cols=27  Identities=26%  Similarity=0.359  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+.++.++|++|+||||.|..++..+.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHH
Confidence            367999999999999999999988765

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=95.82  E-value=0.17  Score=57.92  Aligned_cols=50  Identities=20%  Similarity=0.280  Sum_probs=42.7

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+..++|+...++++.+.+..-......|.|+|..|+|||++|+.+.+.-
T Consensus       185 ~~~~iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s  234 (509)
T PRK05022        185 KEGEMIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAAS  234 (509)
T ss_pred             cCCceeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            45779999999999999887655556788899999999999999998853

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=95.80  E-value=0.014  Score=55.18  Aligned_cols=36  Identities=22%  Similarity=0.283  Sum_probs=29.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+|.|+|.+|.||||||+++.+++...-....++.
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            468999999999999999999999988766666665

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=95.80  E-value=0.022  Score=57.96  Aligned_cols=47  Identities=19%  Similarity=0.236  Sum_probs=33.4

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEe
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMA  240 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~  240 (709)
                      |...|..+-+...++.|+|.+|+|||+||.+++......      -..++|+.
T Consensus         8 lD~~l~GGi~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123           8 LDELLGGGIETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             hHhhccCCCCCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            334454444557899999999999999999998654322      25667776

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 .

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.79  E-value=0.012  Score=57.09  Aligned_cols=37  Identities=27%  Similarity=0.517  Sum_probs=31.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+|.+.|++|+||||+|+.++..+...+...+++.
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            4569999999999999999999999887776666664

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

Probab=95.77  E-value=0.033  Score=62.26  Aligned_cols=127  Identities=21%  Similarity=0.293  Sum_probs=74.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHH-HHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQY-IRDRL  283 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~-l~~~L  283 (709)
                      +.-|.+||++|+|||-||+++++.-.-+|     +. +       .+.     +++...-++     .+..+.. +.+.-
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NF-----is-V-------KGP-----ELlNkYVGE-----SErAVR~vFqRAR  601 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANF-----IS-V-------KGP-----ELLNKYVGE-----SERAVRQVFQRAR  601 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCce-----Ee-e-------cCH-----HHHHHHhhh-----HHHHHHHHHHHhh
Confidence            56788999999999999999999866655     22 1       011     122221110     0112222 22333


Q ss_pred             ccCceEEEecCCCCh-------------hhhhhhhcCCCCC--CCCeEEEEEcCchhhhh-h----cCcceEEEecCCCh
Q 005191          284 QRMKVFIVLDDVNKY-------------GQLEYFDGGLDRF--GPGSRIIVTTRDKTILE-R----YGTHRIYEVEGLNC  343 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~-------------~~~~~l~~~l~~~--~~gsrIIvTTR~~~v~~-~----~~~~~~~~L~~L~~  343 (709)
                      ..-+++|+||.++..             ..+.+++..+.-.  ..|.-||-.|..+.+.. .    -.-+..+-++.-+.
T Consensus       602 ~saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~  681 (802)
T KOG0733|consen  602 ASAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNA  681 (802)
T ss_pred             cCCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCH
Confidence            457999999999531             1345555544422  24666676665443322 1    12346777888888


Q ss_pred             HHHHHHhhhcc
Q 005191          344 NEALRLFCSCA  354 (709)
Q Consensus       344 ~ea~~Lf~~~a  354 (709)
                      +|-.+++....
T Consensus       682 ~eR~~ILK~~t  692 (802)
T KOG0733|consen  682 EERVAILKTIT  692 (802)
T ss_pred             HHHHHHHHHHh
Confidence            88888888776

>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=95.73  E-value=0.0079  Score=54.53  Aligned_cols=22  Identities=45%  Similarity=0.679  Sum_probs=20.4

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |+|.|++|+||||+|+++.+++
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

...

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=95.73  E-value=0.033  Score=53.49  Aligned_cols=127  Identities=15%  Similarity=0.131  Sum_probs=63.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEee---ecccccccC-CHHHHHHHHHHHhcCCCCCCCCCC-hhHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMAN---VREESEKCG-GLVHLRNQVLSKLLGENFDIGTPK-IPQY  278 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~---~~~~~~~~~-~l~~l~~~ll~~l~~~~~~~~~~~-~~~~  278 (709)
                      ....++|.|+.|.|||||++.++...... ...+++..   +.-..+... ....+...+..   ......+..+ ..-.
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~-~G~i~~~~~~~i~~~~q~~~~~~~tv~~nl~~---~~~~~LS~G~~~rv~  101 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWPWG-SGRIGMPEGEDLLFLPQRPYLPLGTLREQLIY---PWDDVLSGGEQQRLA  101 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCC-CceEEECCCceEEEECCCCccccccHHHHhhc---cCCCCCCHHHHHHHH
Confidence            45789999999999999999998754321 22222221   111111100 00122222211   0111222222 3344


Q ss_pred             HHHHHccCceEEEecCCC---ChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEe
Q 005191          279 IRDRLQRMKVFIVLDDVN---KYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEV  338 (709)
Q Consensus       279 l~~~L~~kr~LLVLDdv~---~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L  338 (709)
                      +.+.+..++-++++|+--   +....+.+...+...  +..||++|.+......  .++++.+
T Consensus       102 laral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~~--~d~i~~l  160 (166)
T cd03223         102 FARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWKF--HDRVLDL  160 (166)
T ss_pred             HHHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHhh--CCEEEEE
Confidence            556667788899999873   222233333222222  3567788877655432  3455544

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.73  E-value=0.048  Score=52.94  Aligned_cols=125  Identities=14%  Similarity=0.125  Sum_probs=63.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhc--CC-------------CC
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL--GE-------------NF  268 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~--~~-------------~~  268 (709)
                      ...+++|.|+.|.|||||++.++..... ....+++... .       +......+-..+.  ..             ..
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~-~-------~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~   97 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLKP-QQGEITLDGV-P-------VSDLEKALSSLISVLNQRPYLFDTTLRNNLGR   97 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCCC-CCCEEEECCE-E-------HHHHHHHHHhhEEEEccCCeeecccHHHhhcc
Confidence            4568999999999999999999875322 2333433311 0       0000001111110  00             00


Q ss_pred             CCCCCC-hhHHHHHHHccCceEEEecCCCC---hhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEec
Q 005191          269 DIGTPK-IPQYIRDRLQRMKVFIVLDDVNK---YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVE  339 (709)
Q Consensus       269 ~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~---~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L~  339 (709)
                      ..+..+ ..-.+.+.+..++=++++|+...   ....+.+...+.....+..||++|.+......  .++++.+.
T Consensus        98 ~LS~G~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l~  170 (178)
T cd03247          98 RFSGGERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIEH--MDKILFLE  170 (178)
T ss_pred             cCCHHHHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHHh--CCEEEEEE
Confidence            111111 23334556677888999999842   22222222222211235678888888766543  34555543

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.

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

Probab=95.72  E-value=0.12  Score=56.17  Aligned_cols=150  Identities=13%  Similarity=0.060  Sum_probs=81.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      -|-..++||||.|||++..++++.+.    .-++.-.+..+... .   + ++.++..                     .
T Consensus       235 KRGYLLYGPPGTGKSS~IaAmAn~L~----ydIydLeLt~v~~n-~---d-Lr~LL~~---------------------t  284 (457)
T KOG0743|consen  235 KRGYLLYGPPGTGKSSFIAAMANYLN----YDIYDLELTEVKLD-S---D-LRHLLLA---------------------T  284 (457)
T ss_pred             hccceeeCCCCCCHHHHHHHHHhhcC----CceEEeeeccccCc-H---H-HHHHHHh---------------------C
Confidence            47788999999999999999988642    33444433333222 1   1 2222222                     1


Q ss_pred             cCceEEEecCCCChhh--------------------hhhhhcCC---CCCCCCeEE-EEEcCchhhhhh-----cCcceE
Q 005191          285 RMKVFIVLDDVNKYGQ--------------------LEYFDGGL---DRFGPGSRI-IVTTRDKTILER-----YGTHRI  335 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~~--------------------~~~l~~~l---~~~~~gsrI-IvTTR~~~v~~~-----~~~~~~  335 (709)
                      ..+-+||+.|++..-+                    +--|+..+   ...+.+-|| |.||-..+-+..     -..+..
T Consensus       285 ~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmh  364 (457)
T KOG0743|consen  285 PNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMH  364 (457)
T ss_pred             CCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeE
Confidence            2456777777742100                    01122211   111223465 556655533221     123455


Q ss_pred             EEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          336 YEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       336 ~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      +.+.--+.+.-..|+.+...... +.    .+..+|.+...|.-+.=..++..|
T Consensus       365 I~mgyCtf~~fK~La~nYL~~~~-~h----~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  365 IYMGYCTFEAFKTLASNYLGIEE-DH----RLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             EEcCCCCHHHHHHHHHHhcCCCC-Cc----chhHHHHHHhhcCccCHHHHHHHH
Confidence            67888888888888888874322 22    345666666666655555555554

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=95.68  E-value=0.034  Score=57.69  Aligned_cols=102  Identities=16%  Similarity=0.132  Sum_probs=59.6

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCC
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDI  270 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~  270 (709)
                      ++.+..++..   ...++.|.|+.|.||||++..+...+...-...+.+.+..+...  .+.        .++..  ...
T Consensus        69 ~~~l~~~~~~---~~GlilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~--~~~--------~q~~v--~~~  133 (264)
T cd01129          69 LEIFRKLLEK---PHGIILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQI--PGI--------NQVQV--NEK  133 (264)
T ss_pred             HHHHHHHHhc---CCCEEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecC--CCc--------eEEEe--CCc
Confidence            3444444432   24589999999999999999988776442222333332211110  000        01100  001


Q ss_pred             CCCChhHHHHHHHccCceEEEecCCCChhhhhhhhcC
Q 005191          271 GTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGG  307 (709)
Q Consensus       271 ~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~  307 (709)
                      ........++..++..+=.++++++.+.+....+...
T Consensus       134 ~~~~~~~~l~~~lR~~PD~i~vgEiR~~e~a~~~~~a  170 (264)
T cd01129         134 AGLTFARGLRAILRQDPDIIMVGEIRDAETAEIAVQA  170 (264)
T ss_pred             CCcCHHHHHHHHhccCCCEEEeccCCCHHHHHHHHHH
Confidence            1123677788888889999999999888766554433

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.

>PRK10867 signal recognition particle protein; Provisional

Probab=95.68  E-value=0.25  Score=54.74  Aligned_cols=29  Identities=31%  Similarity=0.457  Sum_probs=25.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+.+|.++|++|+||||.+..++..+..+
T Consensus        99 ~p~vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867         99 PPTVIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            46899999999999999999998877655

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.65  E-value=0.11  Score=56.30  Aligned_cols=87  Identities=13%  Similarity=0.114  Sum_probs=47.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhccc--ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE--GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIR  280 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~  280 (709)
                      ...+++++|+.|+||||++..++.+....+.  .+.++. .... .  .+-.+-++.....++.......... ....+ 
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit-~D~~-R--~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l-  210 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLT-TDSY-R--IGGHEQLRIFGKILGVPVHAVKDGGDLQLAL-  210 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEe-cccc-c--ccHHHHHHHHHHHcCCceEecCCcccHHHHH-
Confidence            3579999999999999999999987654432  344443 1111 0  1222333333344433222222222 33333 


Q ss_pred             HHHccCceEEEecCCC
Q 005191          281 DRLQRMKVFIVLDDVN  296 (709)
Q Consensus       281 ~~L~~kr~LLVLDdv~  296 (709)
                      ..+.++ -++++|..-
T Consensus       211 ~~l~~~-DlVLIDTaG  225 (374)
T PRK14722        211 AELRNK-HMVLIDTIG  225 (374)
T ss_pred             HHhcCC-CEEEEcCCC
Confidence            334444 566699884

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

Probab=95.64  E-value=0.038  Score=63.00  Aligned_cols=151  Identities=20%  Similarity=0.170  Sum_probs=82.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..+.+.++|++|.|||.||++++......|-....-                  .++....+    .........+....
T Consensus       275 ~~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~------------------~l~sk~vG----esek~ir~~F~~A~  332 (494)
T COG0464         275 PPKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGS------------------ELLSKWVG----ESEKNIRELFEKAR  332 (494)
T ss_pred             CCCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCH------------------HHhccccc----hHHHHHHHHHHHHH
Confidence            456899999999999999999999654444211110                  11111100    00000333334444


Q ss_pred             ccCceEEEecCCCCh-------------hhhhhhhcCCCCC--CCCeEEEEEcCchhhhhh-----cCcceEEEecCCCh
Q 005191          284 QRMKVFIVLDDVNKY-------------GQLEYFDGGLDRF--GPGSRIIVTTRDKTILER-----YGTHRIYEVEGLNC  343 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~-------------~~~~~l~~~l~~~--~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~~  343 (709)
                      +..++.|.+|+++..             .....++..+...  ..+..||-||-.+.....     ..-+..+.+++-+.
T Consensus       333 ~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~  412 (494)
T COG0464         333 KLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDL  412 (494)
T ss_pred             cCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCH
Confidence            578999999999531             1233333333211  234445555654433321     12356889999999


Q ss_pred             HHHHHHhhhcccccCCCChhhHHHHHHHHHHhcC
Q 005191          344 NEALRLFCSCAFKENHCPEDLLKHSETAAHYAKG  377 (709)
Q Consensus       344 ~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gG  377 (709)
                      ++..+.|..+......+ -...-..+.+++.+.|
T Consensus       413 ~~r~~i~~~~~~~~~~~-~~~~~~~~~l~~~t~~  445 (494)
T COG0464         413 EERLEIFKIHLRDKKPP-LAEDVDLEELAEITEG  445 (494)
T ss_pred             HHHHHHHHHHhcccCCc-chhhhhHHHHHHHhcC
Confidence            99999998887422221 0111224455555555

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.64  E-value=0.058  Score=52.04  Aligned_cols=55  Identities=13%  Similarity=0.151  Sum_probs=37.6

Q ss_pred             hhHHHHHHHccCceEEEecCC----CChhhhhhh--hcCCCCCCCCeEEEEEcCchhhhhhcC
Q 005191          275 IPQYIRDRLQRMKVFIVLDDV----NKYGQLEYF--DGGLDRFGPGSRIIVTTRDKTILERYG  331 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv----~~~~~~~~l--~~~l~~~~~gsrIIvTTR~~~v~~~~~  331 (709)
                      ..-.+.+.+-++|-+|+-|.-    +....|+-+  +..+  +..|..||++|.+..+...+.
T Consensus       144 QRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeei--nr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         144 QRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEI--NRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHH--hhcCcEEEEEeccHHHHHhcc
Confidence            455677778899999999954    433334322  2222  246899999999998877663

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

Probab=95.59  E-value=0.12  Score=60.29  Aligned_cols=180  Identities=16%  Similarity=0.174  Sum_probs=102.2

Q ss_pred             CCCCCccccchhhhHH---Hhhhhcc-------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          179 SDSDGLIGLESHVEQV---RSLLAIG-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L---~~~L~~~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      .....+.|-++-.++|   .+.|...       ..-++=+.|+|++|.|||-||++++-.-     .+-|+...    ..
T Consensus       308 V~FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEA-----gVPF~svS----GS  378 (774)
T KOG0731|consen  308 VKFKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEA-----GVPFFSVS----GS  378 (774)
T ss_pred             CccccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhccc-----CCceeeec----hH
Confidence            3456788887655544   4555431       1236788999999999999999998863     22233311    10


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-----------------hhhhhhhcCCCCC
Q 005191          249 CGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-----------------GQLEYFDGGLDRF  311 (709)
Q Consensus       249 ~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-----------------~~~~~l~~~l~~~  311 (709)
                               +++..+.+.    ......+.....-.+.++++.+|+++..                 ..+++++..+.-+
T Consensus       379 ---------EFvE~~~g~----~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf  445 (774)
T KOG0731|consen  379 ---------EFVEMFVGV----GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGF  445 (774)
T ss_pred             ---------HHHHHhccc----chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCC
Confidence                     111111110    0000122222223456889999887521                 2345566555544


Q ss_pred             CCCe--EEEEEcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          312 GPGS--RIIVTTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       312 ~~gs--rIIvTTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      ..+.  -+|-+|....++..     -..++.+.++.-+.....++|.-++-..... .+..++++ |+..+-|++=|.
T Consensus       446 ~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  446 ETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             cCCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence            4333  33445555444332     1235678888888889999998888443332 34445555 888888888654

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.55  E-value=0.014  Score=65.77  Aligned_cols=51  Identities=20%  Similarity=0.251  Sum_probs=42.1

Q ss_pred             CCccccchhhhHHHhhhh----ccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          182 DGLIGLESHVEQVRSLLA----IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~----~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++|.++.++.+.+.|.    .-....+++.++|++|+|||+||+.+++-+...
T Consensus        76 ~d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~le~~  130 (644)
T PRK15455         76 EEFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSLMERV  130 (644)
T ss_pred             hcccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHHHHhC
Confidence            368999999999999883    223456899999999999999999999865443

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=95.51  E-value=0.3  Score=53.89  Aligned_cols=29  Identities=24%  Similarity=0.353  Sum_probs=25.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+.+|.++|++|+||||++..++..++.+
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999998876554

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=95.49  E-value=0.049  Score=64.64  Aligned_cols=49  Identities=24%  Similarity=0.205  Sum_probs=39.9

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...++|+...++.+.+.+..-......|.|+|.+|+|||++|+.+.+.-
T Consensus       375 ~~~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s  423 (686)
T PRK15429        375 FGEIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLS  423 (686)
T ss_pred             ccceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhc
Confidence            3579999999999887776543445678899999999999999998753

>TIGR02012 tigrfam_recA protein RecA

Probab=95.48  E-value=0.031  Score=59.29  Aligned_cols=48  Identities=27%  Similarity=0.331  Sum_probs=36.1

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-.+|. .+-+..+++.|+|++|+||||||.+++......-..++|+.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId   90 (321)
T TIGR02012        42 SLDLALGVGGLPRGRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   90 (321)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc
Confidence            3444554 44456789999999999999999999887766555566775

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.48  E-value=0.035  Score=59.01  Aligned_cols=48  Identities=25%  Similarity=0.290  Sum_probs=36.6

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-.+|. .+-+..+++-|+|++|+||||||.+++......-...+|+.
T Consensus        42 ~LD~~Lg~GGlp~G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          42 SLDIALGIGGYPKGRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             HHHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            3444554 44456789999999999999999999887766656677776

RecA couples ATP hydrolysis to DNA strand exchange.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.47  E-value=0.012  Score=58.12  Aligned_cols=26  Identities=35%  Similarity=0.572  Sum_probs=23.4

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +|+|.|++|+||||+|+.+...+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            68999999999999999999987643

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 ....

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

Probab=95.44  E-value=0.06  Score=54.24  Aligned_cols=170  Identities=19%  Similarity=0.157  Sum_probs=93.9

Q ss_pred             CCccccchhhh---HHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          182 DGLIGLESHVE---QVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       182 ~~~vGR~~el~---~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      +..||-+....   -|.+.|..    +.-.++-|..+|++|.|||.+|+++++....-|     +. +           .
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~-----l~-v-----------k  183 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL-----LL-V-----------K  183 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce-----EE-e-----------c
Confidence            45777765443   23445543    223478999999999999999999998754322     11 0           0


Q ss_pred             HHHHHHHHh-cCCCCCCCCCChhHHHHHH-HccCceEEEecCCCC--------------hhhhhhhhcCCCC--CCCCeE
Q 005191          255 LRNQVLSKL-LGENFDIGTPKIPQYIRDR-LQRMKVFIVLDDVNK--------------YGQLEYFDGGLDR--FGPGSR  316 (709)
Q Consensus       255 l~~~ll~~l-~~~~~~~~~~~~~~~l~~~-L~~kr~LLVLDdv~~--------------~~~~~~l~~~l~~--~~~gsr  316 (709)
                      . .+++... +.      ....+..+-++ -+.-++++.||.++-              .+..++++..+..  .+.|..
T Consensus       184 a-t~liGehVGd------gar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVv  256 (368)
T COG1223         184 A-TELIGEHVGD------GARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVV  256 (368)
T ss_pred             h-HHHHHHHhhh------HHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceE
Confidence            0 1111111 11      00022222222 234689999998852              1234555554442  245666


Q ss_pred             EEEEcCchhhhhhc---CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC
Q 005191          317 IIVTTRDKTILERY---GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN  378 (709)
Q Consensus       317 IIvTTR~~~v~~~~---~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl  378 (709)
                      .|-.|.+...+...   .....++..--+.+|-.+++...+-.-..+..   ...+.++++++|.
T Consensus       257 tIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv~---~~~~~~~~~t~g~  318 (368)
T COG1223         257 TIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPVD---ADLRYLAAKTKGM  318 (368)
T ss_pred             EEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCccc---cCHHHHHHHhCCC
Confidence            67777666554421   12356677777888888888877722221111   1155666777665

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=95.40  E-value=0.032  Score=63.20  Aligned_cols=51  Identities=18%  Similarity=0.196  Sum_probs=40.1

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      -+.+|.++|..+-....++.|.|++|+|||||+.+++.....+-..++|+.
T Consensus       248 Gi~~lD~~lgGG~~~gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s  298 (484)
T TIGR02655       248 GVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSKFLENACANKERAILFA  298 (484)
T ss_pred             ChHhHHHHhcCCccCCcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            345666777666566789999999999999999999998766655666665

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=95.39  E-value=0.04  Score=55.96  Aligned_cols=43  Identities=19%  Similarity=0.333  Sum_probs=31.0

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +..++.+.+.....+..+|+|+|+||.|||||..++...+...
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~   56 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRER   56 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhc
Confidence            3344444444444567899999999999999999999887654

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A

Probab=95.37  E-value=0.089  Score=52.04  Aligned_cols=113  Identities=19%  Similarity=0.150  Sum_probs=57.3

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCC
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDI  270 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~  270 (709)
                      .+.+...+..   +-++..|.|++|.|||+++..+...+...-..+++..      ..    ......+....+....  
T Consensus         7 ~~a~~~~l~~---~~~~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~a------pT----~~Aa~~L~~~~~~~a~--   71 (196)
T PF13604_consen    7 REAVRAILTS---GDRVSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLA------PT----NKAAKELREKTGIEAQ--   71 (196)
T ss_dssp             HHHHHHHHHC---TCSEEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEE------SS----HHHHHHHHHHHTS-EE--
T ss_pred             HHHHHHHHhc---CCeEEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEEC------Cc----HHHHHHHHHhhCcchh--
Confidence            3344444442   3468889999999999999998887666532233332      11    1122223333221100  


Q ss_pred             CCCChhHHHHHHH----------ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          271 GTPKIPQYIRDRL----------QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       271 ~~~~~~~~l~~~L----------~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                          .+..+....          ..+.-+||+|++..  ...+..+.....  ..++++|+.--..
T Consensus        72 ----Ti~~~l~~~~~~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD~~  131 (196)
T PF13604_consen   72 ----TIHSFLYRIPNGDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGDPN  131 (196)
T ss_dssp             ----EHHHHTTEECCEECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-TT
T ss_pred             ----hHHHHHhcCCcccccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECCcc
Confidence                000000000          12345999999964  446666666554  2577887766544

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.35  E-value=0.082  Score=51.31  Aligned_cols=127  Identities=15%  Similarity=0.124  Sum_probs=62.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccc-cc-cCCHHHHHHHHHHHhcCCC--CCC--CCCC---
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREES-EK-CGGLVHLRNQVLSKLLGEN--FDI--GTPK---  274 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~-~~-~~~l~~l~~~ll~~l~~~~--~~~--~~~~---  274 (709)
                      ...+++|.|+.|+|||||.+.+...     ...+.+....... .. ..-..  +.+.+..++-..  ...  ....   
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~~-----~G~v~~~~~~~~~~~~~~~~~~--q~~~l~~~~L~~~~~~~~~~~LSgGq   92 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLYA-----SGKARLISFLPKFSRNKLIFID--QLQFLIDVGLGYLTLGQKLSTLSGGE   92 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhc-----CCcEEECCcccccccccEEEEh--HHHHHHHcCCCccccCCCcCcCCHHH
Confidence            4578999999999999999987531     1111111000000 00 00000  134445443211  111  1111   


Q ss_pred             -hhHHHHHHHccC--ceEEEecCCC---ChhhhhhhhcCCCCC-CCCeEEEEEcCchhhhhhcCcceEEEec
Q 005191          275 -IPQYIRDRLQRM--KVFIVLDDVN---KYGQLEYFDGGLDRF-GPGSRIIVTTRDKTILERYGTHRIYEVE  339 (709)
Q Consensus       275 -~~~~l~~~L~~k--r~LLVLDdv~---~~~~~~~l~~~l~~~-~~gsrIIvTTR~~~v~~~~~~~~~~~L~  339 (709)
                       ..-.+...+..+  +-++++|+--   +....+.+...+... ..|..||++|.+......  .++++.+.
T Consensus        93 ~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~~--~d~i~~l~  162 (176)
T cd03238          93 LQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS--ADWIIDFG  162 (176)
T ss_pred             HHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHh--CCEEEEEC
Confidence             222344555667  7899999873   233233333222211 246678888888765542  44555553

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=95.33  E-value=0.049  Score=52.92  Aligned_cols=115  Identities=19%  Similarity=0.206  Sum_probs=60.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeee--cccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV--REESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIR  280 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~--~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~  280 (709)
                      ...+++|.|+.|.|||||.+.++.-... ....+.+...  .-..+. ..                  .+..+ ..-.+.
T Consensus        24 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~~g~~i~~~~q~-~~------------------LSgGq~qrv~la   83 (177)
T cd03222          24 EGEVIGIVGPNGTGKTTAVKILAGQLIP-NGDNDEWDGITPVYKPQY-ID------------------LSGGELQRVAIA   83 (177)
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcCCCC-CCcEEEECCEEEEEEccc-CC------------------CCHHHHHHHHHH
Confidence            3569999999999999999988764322 2333333211  001110 00                  11111 333455


Q ss_pred             HHHccCceEEEecCCC---ChhhhhhhhcCCCCC--CCCeEEEEEcCchhhhhhcCcceEEEec
Q 005191          281 DRLQRMKVFIVLDDVN---KYGQLEYFDGGLDRF--GPGSRIIVTTRDKTILERYGTHRIYEVE  339 (709)
Q Consensus       281 ~~L~~kr~LLVLDdv~---~~~~~~~l~~~l~~~--~~gsrIIvTTR~~~v~~~~~~~~~~~L~  339 (709)
                      ..+..++-++++|+--   +....+.+...+...  ..+..||++|.+....... .++++.+.
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~~~-~d~i~~l~  146 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLDYL-SDRIHVFE  146 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHHHh-CCEEEEEc
Confidence            5666788899999873   222222222222111  1225677777776554433 23455554

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins

Probab=95.32  E-value=0.036  Score=50.33  Aligned_cols=60  Identities=17%  Similarity=0.243  Sum_probs=51.4

Q ss_pred             eEEecCCcccccCchHHHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccC
Q 005191            7 DVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKN   69 (709)
Q Consensus         7 dvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~   69 (709)
                      .|||.|+ +|  ..+++.+...|+..|+.+.+=. ....|..+.+.+.+.+.+++.+|++++|+
T Consensus         1 kVFIvhg-~~--~~~~~~v~~~L~~~~~ep~i~~~~~~~g~tiie~le~~~~~~~faIvl~TpD   61 (125)
T PF10137_consen    1 KVFIVHG-RD--LAAAEAVERFLEKLGLEPIIWHEQPNLGQTIIEKLEEAADSVDFAIVLFTPD   61 (125)
T ss_pred             CEEEEeC-CC--HHHHHHHHHHHHhCCCceEEeecCCCCCCchHHHHHHHhccCCEEEEEEccc
Confidence            3899997 66  5689999999998888865433 56889999999999999999999999983

Their exact function has not, as yet, been defined.

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=95.29  E-value=0.047  Score=52.65  Aligned_cols=128  Identities=19%  Similarity=0.269  Sum_probs=63.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCC---------CCCCC
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFD---------IGTPK  274 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~---------~~~~~  274 (709)
                      ...+++|.|+.|.|||||.+.++..... ....+++... ....  ......... ..-+.....-         .+..+
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~~-~~G~i~~~g~-~~~~--~~~~~~~~~-i~~~~~~~~~~~~t~~e~lLS~G~  101 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYDP-TSGEILIDGV-DLRD--LDLESLRKN-IAYVPQDPFLFSGTIRENILSGGQ  101 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCC-CCCEEEECCE-Ehhh--cCHHHHHhh-EEEEcCCchhccchHHHHhhCHHH
Confidence            4578999999999999999999875432 3344444311 0000  000010000 0000000000         11111


Q ss_pred             -hhHHHHHHHccCceEEEecCCCC---hhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEe
Q 005191          275 -IPQYIRDRLQRMKVFIVLDDVNK---YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEV  338 (709)
Q Consensus       275 -~~~~l~~~L~~kr~LLVLDdv~~---~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L  338 (709)
                       ..-.+...+..++-+++||+-..   ....+.+...+.....+..||++|.+......  .++++.+
T Consensus       102 ~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228         102 RQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence             22334556667888999998742   22222222222211234678888888766543  3455544

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.

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

Probab=95.24  E-value=0.27  Score=50.57  Aligned_cols=172  Identities=17%  Similarity=0.189  Sum_probs=92.9

Q ss_pred             CCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCC
Q 005191          182 DGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGG  251 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~  251 (709)
                      +..-|.+...+.|.+...-          ....-+-|.++|++|.|||-||++|+......     |+.    ++..   
T Consensus       133 sDVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATEAnST-----FFS----vSSS---  200 (439)
T KOG0739|consen  133 SDVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATEANST-----FFS----VSSS---  200 (439)
T ss_pred             hhhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhhcCCc-----eEE----eehH---
Confidence            4567888777777775421          11235889999999999999999999874332     222    1111   


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCCh---------hhhhh----hhcC---CCCCCCC
Q 005191          252 LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNKY---------GQLEY----FDGG---LDRFGPG  314 (709)
Q Consensus       252 l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~~---------~~~~~----l~~~---l~~~~~g  314 (709)
                            .+.+...++.     +.+...|.+.. ++++-+|.+|.++..         +....    ++-.   ......|
T Consensus       201 ------DLvSKWmGES-----EkLVknLFemARe~kPSIIFiDEiDslcg~r~enEseasRRIKTEfLVQMqGVG~d~~g  269 (439)
T KOG0739|consen  201 ------DLVSKWMGES-----EKLVKNLFEMARENKPSIIFIDEIDSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDG  269 (439)
T ss_pred             ------HHHHHHhccH-----HHHHHHHHHHHHhcCCcEEEeehhhhhccCCCCCchHHHHHHHHHHHHhhhccccCCCc
Confidence                  1222221110     11333333333 468899999999531         11111    1111   1222346


Q ss_pred             eEEEEEcCchhhhhhc---CcceEEEecCCChHHH-HHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          315 SRIIVTTRDKTILERY---GTHRIYEVEGLNCNEA-LRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       315 srIIvTTR~~~v~~~~---~~~~~~~L~~L~~~ea-~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ..|+-.|..+-++.+.   .....+-+ ||++..| ..+|.-+.+.  .+....+...+++.+++.|.-
T Consensus       270 vLVLgATNiPw~LDsAIRRRFekRIYI-PLPe~~AR~~MF~lhlG~--tp~~LT~~d~~eL~~kTeGyS  335 (439)
T KOG0739|consen  270 VLVLGATNIPWVLDSAIRRRFEKRIYI-PLPEAHARARMFKLHLGD--TPHVLTEQDFKELARKTEGYS  335 (439)
T ss_pred             eEEEecCCCchhHHHHHHHHhhcceec-cCCcHHHhhhhheeccCC--CccccchhhHHHHHhhcCCCC
Confidence            6667777776544432   12223333 4555555 4566666532  233334455677888887754

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.24  E-value=0.055  Score=52.74  Aligned_cols=28  Identities=32%  Similarity=0.412  Sum_probs=24.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      +.|.++|.+|+||||+|+++++.++++-
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~L~~~i   29 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKELRQEI   29 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHHHHHhh
Confidence            4688999999999999999999776653

>PRK08233 hypothetical protein; Provisional

Probab=95.22  E-value=0.015  Score=56.35  Aligned_cols=26  Identities=23%  Similarity=0.415  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+|+|.|.+|+||||||..++..+.
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhCC
Confidence            47899999999999999999998753

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.22  E-value=0.03  Score=53.59  Aligned_cols=117  Identities=15%  Similarity=0.195  Sum_probs=61.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDR  282 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~  282 (709)
                      ...+++|.|+.|.|||||.+.++.... .....+++... ....  .......+   ..++. ....+..+ ..-.+.+.
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~-~~~G~v~~~g~-~~~~--~~~~~~~~---~~i~~-~~qLS~G~~qrl~lara   96 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLYK-PDSGEILVDGK-EVSF--ASPRDARR---AGIAM-VYQLSVGERQMVEIARA   96 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCC-CCCeEEEECCE-ECCc--CCHHHHHh---cCeEE-EEecCHHHHHHHHHHHH
Confidence            457899999999999999999887542 23444554421 1110  11111110   01110 00022222 33345566


Q ss_pred             HccCceEEEecCCCC---hhhhhhhhcCCCCC-CCCeEEEEEcCchhhhh
Q 005191          283 LQRMKVFIVLDDVNK---YGQLEYFDGGLDRF-GPGSRIIVTTRDKTILE  328 (709)
Q Consensus       283 L~~kr~LLVLDdv~~---~~~~~~l~~~l~~~-~~gsrIIvTTR~~~v~~  328 (709)
                      +..++-++++|+-..   ....+.+...+... ..+..||++|.+.....
T Consensus        97 l~~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~  146 (163)
T cd03216          97 LARNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVF  146 (163)
T ss_pred             HhcCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHH
Confidence            677888999999732   22223332222211 23667888888875444

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.

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.22  E-value=0.17  Score=48.70  Aligned_cols=117  Identities=16%  Similarity=0.091  Sum_probs=59.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHh--cCCCCC--CCCCC-------
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKL--LGENFD--IGTPK-------  274 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l--~~~~~~--~~~~~-------  274 (709)
                      ..|-|++..|.||||.|..++.+...+--.++.+.-+... .. .+-...++.+.-.+  .+....  ..+.+       
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~-~~-~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~   83 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGA-WP-NGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAK   83 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCC-cc-cChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHH
Confidence            5777888899999999999988765543333322212111 11 22223333321111  111100  01111       


Q ss_pred             -hhHHHHHHHcc-CceEEEecCCC-----ChhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          275 -IPQYIRDRLQR-MKVFIVLDDVN-----KYGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       275 -~~~~l~~~L~~-kr~LLVLDdv~-----~~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                       .....++.+.. +-=|||||.+.     ..-..+.+...+....++..||+|-|+.
T Consensus        84 ~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~  140 (173)
T TIGR00708        84 AAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGC  140 (173)
T ss_pred             HHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCC
Confidence             12223334444 44599999983     1222233333333345677999999987

Alternate name: corrinoid adenosyltransferase.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=95.22  E-value=0.14  Score=52.34  Aligned_cols=24  Identities=21%  Similarity=0.343  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +..|+|+||+|||+||..++..+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            457899999999999999988654

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=95.22  E-value=0.06  Score=57.78  Aligned_cols=45  Identities=31%  Similarity=0.237  Sum_probs=36.1

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ++|....++++.+.+..-.....-|.|+|.+|+||+++|+.+.+.
T Consensus         1 liG~S~~m~~~~~~~~~~a~~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAPLDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhCCCCCEEEECCCCChHHHHHHHHHHh
Confidence            478888888888877654444567889999999999999988764

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

>PRK09354 recA recombinase A; Provisional

Probab=95.22  E-value=0.045  Score=58.66  Aligned_cols=48  Identities=29%  Similarity=0.333  Sum_probs=37.2

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-.+|. .+-+..+++-|+|++|+||||||.+++......-...+|+.
T Consensus        47 ~LD~~LG~GGip~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId   95 (349)
T PRK09354         47 ALDIALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   95 (349)
T ss_pred             HHHHHhcCCCCcCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            3445555 44456789999999999999999999887766656677776

>PRK05480 uridine/cytidine kinase; Provisional

Probab=95.20  E-value=0.018  Score=57.56  Aligned_cols=27  Identities=33%  Similarity=0.623  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+..+|+|.|.+|+|||||++.++..+
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999999876

>PRK11823 DNA repair protein RadA; Provisional

Probab=95.19  E-value=0.059  Score=60.30  Aligned_cols=50  Identities=24%  Similarity=0.258  Sum_probs=36.5

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.+|.+.|..+-....++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        66 i~~LD~~LgGGi~~Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         66 IGELDRVLGGGLVPGSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             cHHHHHHhcCCccCCEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            34555666544445679999999999999999999987764434556665

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=95.18  E-value=0.036  Score=57.58  Aligned_cols=27  Identities=30%  Similarity=0.298  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +.|.|+|.||+||||+|+++...+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~~~~~   28 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKYLEEK   28 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHHHHhc
Confidence            478999999999999999999977663

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK06762 hypothetical protein; Provisional

Probab=95.18  E-value=0.017  Score=55.35  Aligned_cols=25  Identities=40%  Similarity=0.489  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.+|.|+|++|+||||+|+.+++.+
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999999876

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.15  E-value=0.19  Score=56.55  Aligned_cols=29  Identities=24%  Similarity=0.383  Sum_probs=24.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+++|+|++|+||||++..++..+..+
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            35899999999999999999998876544

>TIGR00416 sms DNA repair protein RadA

Probab=95.14  E-value=0.055  Score=60.61  Aligned_cols=50  Identities=24%  Similarity=0.269  Sum_probs=37.3

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.+|.+.|..+-....++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        80 i~~LD~vLgGGi~~GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        80 FGELDRVLGGGIVPGSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             cHHHHHHhcCCccCCeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            44555666555455789999999999999999999887665534556665

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=95.13  E-value=0.078  Score=51.22  Aligned_cols=125  Identities=16%  Similarity=0.188  Sum_probs=63.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhc--CCCCC------------
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL--GENFD------------  269 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~--~~~~~------------  269 (709)
                      ...+++|.|+.|.|||||.+.++..... ....+++... ....  .  .   ......+.  .....            
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~-~~~~--~--~---~~~~~~i~~~~q~~~~~~~~tv~~~~~   95 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLLKP-DSGEIKVLGK-DIKK--E--P---EEVKRRIGYLPEEPSLYENLTVRENLK   95 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCE-Eccc--c--h---HhhhccEEEEecCCccccCCcHHHHhh
Confidence            4578999999999999999998775322 2334443311 0000  0  0   00001110  00000            


Q ss_pred             CCCCC-hhHHHHHHHccCceEEEecCCCC---hhhhhhhhcCCCCC-CCCeEEEEEcCchhhhhhcCcceEEEe
Q 005191          270 IGTPK-IPQYIRDRLQRMKVFIVLDDVNK---YGQLEYFDGGLDRF-GPGSRIIVTTRDKTILERYGTHRIYEV  338 (709)
Q Consensus       270 ~~~~~-~~~~l~~~L~~kr~LLVLDdv~~---~~~~~~l~~~l~~~-~~gsrIIvTTR~~~v~~~~~~~~~~~L  338 (709)
                      .+..+ ..-.+...+..++-++++|+-..   ....+.+...+... ..|..||++|.+....... .++++.+
T Consensus        96 LS~G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~~~-~d~i~~l  168 (173)
T cd03230          96 LSGGMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAERL-CDRVAIL  168 (173)
T ss_pred             cCHHHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHh-CCEEEEE
Confidence            11111 23345566777899999999832   22222222222111 2366788888887655533 2344444

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=95.12  E-value=0.12  Score=49.80  Aligned_cols=26  Identities=31%  Similarity=0.460  Sum_probs=23.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ++.+.|++|+||||++..++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57899999999999999999887665

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=95.11  E-value=0.082  Score=49.80  Aligned_cols=25  Identities=32%  Similarity=0.485  Sum_probs=21.9

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ++.|.|.+|+||||||+.+...+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~~   25 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLFQ   25 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4789999999999999999987653

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>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=95.11  E-value=0.018  Score=53.47  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +|.+.|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            578999999999999999987643

...

>PTZ00301 uridine kinase; Provisional

Probab=95.10  E-value=0.019  Score=57.32  Aligned_cols=29  Identities=21%  Similarity=0.489  Sum_probs=25.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ..+|+|.|.+|.||||||+.+.+++...+
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~l~~~~   31 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSELMAHC   31 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHHHHhhc
Confidence            46899999999999999999988875543

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.10  E-value=0.014  Score=51.63  Aligned_cols=26  Identities=31%  Similarity=0.521  Sum_probs=22.2

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      |-|+|++|+|||+||..++..+.+++
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~~   26 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKHI   26 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            46899999999999999998876553

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

>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=95.05  E-value=0.017  Score=60.17  Aligned_cols=128  Identities=14%  Similarity=0.128  Sum_probs=70.0

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLS  261 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~  261 (709)
                      +.+.-.....+.+.+.|...-.....+.|.|..|.||||++..+...+...-...+-+.+..+..-+         . ..
T Consensus       104 e~l~~~~~~~~~~~~~l~~~v~~~~~ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~---------~-~~  173 (270)
T PF00437_consen  104 EDLGESGSIPEEIAEFLRSAVRGRGNILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLP---------G-PN  173 (270)
T ss_dssp             CCCCHTHHCHHHHHHHHHHCHHTTEEEEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--S---------C-SS
T ss_pred             hhccCchhhHHHHHHHHhhccccceEEEEECCCccccchHHHHHhhhccccccceEEeccccceeec---------c-cc
Confidence            3344333444555555553323468999999999999999999988765551222333322111000         0 00


Q ss_pred             HhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEE-EEEcCch
Q 005191          262 KLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRI-IVTTRDK  324 (709)
Q Consensus       262 ~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrI-IvTTR~~  324 (709)
                      ...... ........+.++..|+..+=.++++.+.+.+....+...    ..|..+ +-|....
T Consensus       174 ~~~~~~-~~~~~~~~~~l~~~LR~~pD~iiigEiR~~e~~~~~~a~----~tGh~~~~tT~Ha~  232 (270)
T PF00437_consen  174 QIQIQT-RRDEISYEDLLKSALRQDPDVIIIGEIRDPEAAEAIQAA----NTGHLGSLTTLHAN  232 (270)
T ss_dssp             EEEEEE-ETTTBSHHHHHHHHTTS--SEEEESCE-SCHHHHHHHHH----HTT-EEEEEEEE-S
T ss_pred             eEEEEe-ecCcccHHHHHHHHhcCCCCcccccccCCHhHHHHHHhh----ccCCceeeeeeecC
Confidence            000000 012223778888889999999999999888777664333    456666 5555433

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 ....

>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=95.03  E-value=0.087  Score=50.90  Aligned_cols=128  Identities=18%  Similarity=0.204  Sum_probs=63.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCC---------CCCCC
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFD---------IGTPK  274 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~---------~~~~~  274 (709)
                      ...+++|.|+.|.|||||.+.++..... ....+.+... ....  .........+ ..+.....-         .+..+
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~-~~~~--~~~~~~~~~i-~~~~q~~~~~~~tv~~~lLS~G~  101 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLLRP-TSGRVRLDGA-DISQ--WDPNELGDHV-GYLPQDDELFSGSIAENILSGGQ  101 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCC-CCCeEEECCE-Eccc--CCHHHHHhhe-EEECCCCccccCcHHHHCcCHHH
Confidence            4568999999999999999999875432 2334443311 1000  0111111100 000000000         11111


Q ss_pred             -hhHHHHHHHccCceEEEecCCC---ChhhhhhhhcCCCCC-CCCeEEEEEcCchhhhhhcCcceEEEe
Q 005191          275 -IPQYIRDRLQRMKVFIVLDDVN---KYGQLEYFDGGLDRF-GPGSRIIVTTRDKTILERYGTHRIYEV  338 (709)
Q Consensus       275 -~~~~l~~~L~~kr~LLVLDdv~---~~~~~~~l~~~l~~~-~~gsrIIvTTR~~~v~~~~~~~~~~~L  338 (709)
                       ..-.+...+..++=++++|+-.   +......+...+... ..|..||++|.+..... . .++++.+
T Consensus       102 ~qrv~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~-~-~d~v~~l  168 (173)
T cd03246         102 RQRLGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA-S-ADRILVL  168 (173)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH-h-CCEEEEE
Confidence             2334455566778899999973   222222222222111 23667888888776554 2 4455554

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

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

Probab=95.02  E-value=0.049  Score=60.01  Aligned_cols=48  Identities=23%  Similarity=0.261  Sum_probs=34.5

Q ss_pred             CCccccch---hhhHHHhhhhccC-------CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          182 DGLIGLES---HVEQVRSLLAIGL-------PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       182 ~~~vGR~~---el~~L~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...-|.|+   |++++.+.|....       .=++-|.++|++|.|||-||++++-+.
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA  361 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEA  361 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhccc
Confidence            44556665   5666666665421       116788999999999999999998763

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.97  E-value=0.052  Score=56.37  Aligned_cols=46  Identities=28%  Similarity=0.326  Sum_probs=37.1

Q ss_pred             HhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          195 RSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       195 ~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...|..+-+..+++=|+|+.|.||||+|.+++-..+..-...+|++
T Consensus        50 D~~LGGGl~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fID   95 (279)
T COG0468          50 DEALGGGLPRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFID   95 (279)
T ss_pred             HHHhcCCcccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEe
Confidence            3444444456799999999999999999999887777767888887

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.96  E-value=0.11  Score=52.88  Aligned_cols=208  Identities=15%  Similarity=0.186  Sum_probs=110.7

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh------cccceEEEeeecc------cc---
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ------KFEGKYFMANVRE------ES---  246 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~------~f~~~~~v~~~~~------~~---  246 (709)
                      ..+.++++.-..+.+...  ..+.+-..++|++|.||-|.+..+.+++-.      +-+...|......      .+   
T Consensus        13 ~~l~~~~e~~~~Lksl~~--~~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~y   90 (351)
T KOG2035|consen   13 DELIYHEELANLLKSLSS--TGDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNY   90 (351)
T ss_pred             hhcccHHHHHHHHHHhcc--cCCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccc
Confidence            347777777777777655  235778889999999999999988887533      1233344332111      00   


Q ss_pred             -------cccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCce-EEEecCCCC--hhhhhhhhcCCCCCCCCeE
Q 005191          247 -------EKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKV-FIVLDDVNK--YGQLEYFDGGLDRFGPGSR  316 (709)
Q Consensus       247 -------~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~-LLVLDdv~~--~~~~~~l~~~l~~~~~gsr  316 (709)
                             +....-.-+.++++..+.....-.           .-..+++ ++|+-.+++  .+.-.++........+.+|
T Consensus        91 HlEitPSDaG~~DRvViQellKevAQt~qie-----------~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~R  159 (351)
T KOG2035|consen   91 HLEITPSDAGNYDRVVIQELLKEVAQTQQIE-----------TQGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCR  159 (351)
T ss_pred             eEEeChhhcCcccHHHHHHHHHHHHhhcchh-----------hccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCce
Confidence                   000001122233333321110000           0011233 556666653  2222333333333456778


Q ss_pred             EEEEcCch-hhhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhc--C-
Q 005191          317 IIVTTRDK-TILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFH--R-  391 (709)
Q Consensus       317 IIvTTR~~-~v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~--~-  391 (709)
                      +|+..-+. .+.... +.--.++++..+++|....+++.+-++...-+  .+++.+|+++++|+---.-.+....+  + 
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllmlE~~~~~n~  237 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLMLEAVRVNNE  237 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHHHHHHhccc
Confidence            87754332 111111 12245789999999999999887744332222  57899999999997432222222221  1 


Q ss_pred             --------CChhhHHHHHHHh
Q 005191          392 --------KSKPDWVNTLNNL  404 (709)
Q Consensus       392 --------~~~~ew~~~L~~L  404 (709)
                              -+..+|+-.+.+.
T Consensus       238 ~~~a~~~~i~~~dWe~~i~e~  258 (351)
T KOG2035|consen  238 PFTANSQVIPKPDWEIYIQEI  258 (351)
T ss_pred             cccccCCCCCCccHHHHHHHH
Confidence                    1356798888764

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.95  E-value=0.032  Score=56.69  Aligned_cols=31  Identities=32%  Similarity=0.392  Sum_probs=26.7

Q ss_pred             CCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          202 LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       202 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+...+++|.|++|.|||||++.+...+...
T Consensus        30 ~~~~~iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         30 PQRRTIVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            3467899999999999999999999876654

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

Probab=94.95  E-value=0.48  Score=47.55  Aligned_cols=125  Identities=22%  Similarity=0.279  Sum_probs=68.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH-
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR-  282 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~-  282 (709)
                      ++.-+.++|++|.|||-||+++++.     ....|+. ++..        ++.+..+   + +        ....+++. 
T Consensus       180 QPKGvlLygppgtGktLlaraVahh-----t~c~fir-vsgs--------elvqk~i---g-e--------gsrmvrelf  233 (404)
T KOG0728|consen  180 QPKGVLLYGPPGTGKTLLARAVAHH-----TDCTFIR-VSGS--------ELVQKYI---G-E--------GSRMVRELF  233 (404)
T ss_pred             CCcceEEecCCCCchhHHHHHHHhh-----cceEEEE-echH--------HHHHHHh---h-h--------hHHHHHHHH
Confidence            5677889999999999999999885     2334444 2211        1211111   1 1        12223322 


Q ss_pred             ---HccCceEEEecCCCChh------------h----hhhhhcCCCCC--CCCeEEEEEcCchhhhhh-----cCcceEE
Q 005191          283 ---LQRMKVFIVLDDVNKYG------------Q----LEYFDGGLDRF--GPGSRIIVTTRDKTILER-----YGTHRIY  336 (709)
Q Consensus       283 ---L~~kr~LLVLDdv~~~~------------~----~~~l~~~l~~~--~~gsrIIvTTR~~~v~~~-----~~~~~~~  336 (709)
                         -.+-+.+|+.|.+++..            .    .-.++..+..+  ..+-+||..|..-+++..     -..++.+
T Consensus       234 vmarehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrki  313 (404)
T KOG0728|consen  234 VMAREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKI  313 (404)
T ss_pred             HHHHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccc
Confidence               23467888889886421            1    11233333322  356677776654433321     2244667


Q ss_pred             EecCCChHHHHHHhhhcc
Q 005191          337 EVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       337 ~L~~L~~~ea~~Lf~~~a  354 (709)
                      +.++-+.+.-.+++.-+.
T Consensus       314 efp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  314 EFPPPNEEARLDILKIHS  331 (404)
T ss_pred             cCCCCCHHHHHHHHHHhh
Confidence            777777776677765544

>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=94.94  E-value=0.02  Score=46.27  Aligned_cols=23  Identities=35%  Similarity=0.534  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +++|.|.+|+||||+++.+.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999886

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.

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.93  E-value=0.034  Score=61.84  Aligned_cols=46  Identities=24%  Similarity=0.202  Sum_probs=38.7

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..++||++.++.+...+..+    .-|.|.|++|+|||+||+.+......
T Consensus        20 ~~i~gre~vI~lll~aalag----~hVLL~GpPGTGKT~LAraLa~~~~~   65 (498)
T PRK13531         20 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQN   65 (498)
T ss_pred             hhccCcHHHHHHHHHHHccC----CCEEEECCCChhHHHHHHHHHHHhcc
Confidence            46999999999988877633    46789999999999999999986543

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.93  E-value=0.32  Score=54.16  Aligned_cols=42  Identities=21%  Similarity=0.335  Sum_probs=33.4

Q ss_pred             chhhhHHHhhhh-----ccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          188 ESHVEQVRSLLA-----IGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       188 ~~el~~L~~~L~-----~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+-+.++..||.     ...-+.+++.|+|++|+||||-.+.++..+
T Consensus        88 kkKI~eVk~WL~~~~~~~~~l~~~iLLltGPsGcGKSTtvkvLskel  134 (634)
T KOG1970|consen   88 KKKISEVKQWLKQVAEFTPKLGSRILLLTGPSGCGKSTTVKVLSKEL  134 (634)
T ss_pred             HHhHHHHHHHHHHHHHhccCCCceEEEEeCCCCCCchhHHHHHHHhh
Confidence            345777788887     344457899999999999999999888763

>TIGR00235 udk uridine kinase

Probab=94.90  E-value=0.026  Score=56.39  Aligned_cols=28  Identities=39%  Similarity=0.655  Sum_probs=24.5

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +...+|+|.|++|+|||||++.++..+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            4568999999999999999999988654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.88  E-value=0.07  Score=60.95  Aligned_cols=26  Identities=38%  Similarity=0.618  Sum_probs=23.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +..+++.++|++|+||||||.-++++
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkq  349 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQ  349 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHh
Confidence            45789999999999999999998886

>PRK03839 putative kinase; Provisional

Probab=94.86  E-value=0.021  Score=55.53  Aligned_cols=24  Identities=29%  Similarity=0.625  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .|.|.|++|+||||+++.+++++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~   25 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999863

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=94.80  E-value=0.53  Score=55.46  Aligned_cols=49  Identities=16%  Similarity=0.148  Sum_probs=38.9

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.++|....+.++.+....-......|.|+|.+|+||+++|+.+.+.-
T Consensus       324 ~~~l~g~s~~~~~~~~~~~~~a~~~~pvli~Ge~GtGK~~~A~~ih~~s  372 (638)
T PRK11388        324 FDHMPQDSPQMRRLIHFGRQAAKSSFPVLLCGEEGVGKALLAQAIHNES  372 (638)
T ss_pred             ccceEECCHHHHHHHHHHHHHhCcCCCEEEECCCCcCHHHHHHHHHHhC
Confidence            4668999998888888776533344558899999999999999988753

>PRK00131 aroK shikimate kinase; Reviewed

Probab=94.80  E-value=0.024  Score=54.46  Aligned_cols=25  Identities=24%  Similarity=0.361  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|.|+|++|+||||+|+.+++++
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~l   28 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKRL   28 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999999986

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.79  E-value=0.14  Score=55.96  Aligned_cols=27  Identities=26%  Similarity=0.358  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+++.++|+.|+||||.+..++..+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            467999999999999999999988765

>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=94.76  E-value=0.019  Score=52.10  Aligned_cols=28  Identities=32%  Similarity=0.488  Sum_probs=20.2

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcccc
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKFEG  235 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f~~  235 (709)
                      |.|+|.+|+|||++|+.++..+...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeE
Confidence            6799999999999999999988777653

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.75  E-value=0.11  Score=54.41  Aligned_cols=29  Identities=24%  Similarity=0.382  Sum_probs=25.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++++|+|++|+||||++..++..+..+
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~  221 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLE  221 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            45799999999999999999999877543

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=94.74  E-value=0.036  Score=50.93  Aligned_cols=40  Identities=23%  Similarity=0.194  Sum_probs=28.9

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +..++-+.|...-....++.+.|.-|.|||||++.+++.+
T Consensus         7 ~t~~l~~~l~~~l~~~~~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150         7 AMDKFGKAFAKPLDFGTVVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             HHHHHHHHHHHhCCCCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            3444444444322345689999999999999999999875

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.

>CHL00206 ycf2 Ycf2; Provisional

Probab=94.74  E-value=0.18  Score=63.96  Aligned_cols=26  Identities=15%  Similarity=0.166  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .++-|.++|++|.|||.||+++|...
T Consensus      1629 pPKGILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1629 PSRGILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHhc
Confidence            46788999999999999999999863

>PRK04040 adenylate kinase; Provisional

Probab=94.74  E-value=0.029  Score=55.16  Aligned_cols=25  Identities=28%  Similarity=0.567  Sum_probs=22.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|+|+|++|+||||+++.+.+.+.
T Consensus         3 ~~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          3 KVVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHhc
Confidence            5799999999999999999999874

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.71  E-value=0.19  Score=54.29  Aligned_cols=37  Identities=24%  Similarity=0.304  Sum_probs=28.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.++++|+|+.|+||||++..++..+..+-..+.++.
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt  241 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT  241 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4689999999999999999999887644433344444

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=94.69  E-value=0.15  Score=54.22  Aligned_cols=37  Identities=16%  Similarity=0.331  Sum_probs=28.5

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..|-++|..+-+...++-|+|++|+|||+|+.+++-.
T Consensus        83 ~~LD~lLgGGi~~G~iteI~G~~GsGKTql~lqla~~  119 (313)
T TIGR02238        83 QALDGILGGGIESMSITEVFGEFRCGKTQLSHTLCVT  119 (313)
T ss_pred             HHHHHHhCCCCcCCeEEEEECCCCCCcCHHHHHHHHH
Confidence            3455566655456789999999999999999988753

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=94.66  E-value=0.2  Score=53.12  Aligned_cols=135  Identities=20%  Similarity=0.253  Sum_probs=70.5

Q ss_pred             CccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHH-H-h-hhcccceEEEeeecccccc--------cCC
Q 005191          183 GLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFN-Q-F-SQKFEGKYFMANVREESEK--------CGG  251 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~-~-~-~~~f~~~~~v~~~~~~~~~--------~~~  251 (709)
                      ++-+|..+-.--.++|.  .++...|.+.|.+|.|||.||.+..- + + +..|...+....+-...+.        ...
T Consensus       225 Gi~prn~eQ~~ALdlLl--d~dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eEeK  302 (436)
T COG1875         225 GIRPRNAEQRVALDLLL--DDDIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEEEK  302 (436)
T ss_pred             ccCcccHHHHHHHHHhc--CCCCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchhhh
Confidence            34455555555555555  34688999999999999999876543 2 1 2334443332211111110        011


Q ss_pred             HHHHHHHHHHHh---cCCCCCCCCCChhHHH-H---------HHHcc---CceEEEecCCCC--hhhhhhhhcCCCCCCC
Q 005191          252 LVHLRNQVLSKL---LGENFDIGTPKIPQYI-R---------DRLQR---MKVFIVLDDVNK--YGQLEYFDGGLDRFGP  313 (709)
Q Consensus       252 l~~l~~~ll~~l---~~~~~~~~~~~~~~~l-~---------~~L~~---kr~LLVLDdv~~--~~~~~~l~~~l~~~~~  313 (709)
                      +..+.+.+...+   .... ... ....+.+ .         .+.++   .+-++|+|.+.+  ..+++.+...   .++
T Consensus       303 m~PWmq~i~DnLE~L~~~~-~~~-~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTpheikTiltR---~G~  377 (436)
T COG1875         303 MGPWMQAIFDNLEVLFSPN-EPG-DRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHELKTILTR---AGE  377 (436)
T ss_pred             ccchHHHHHhHHHHHhccc-ccc-hHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHHHHHHHHh---ccC
Confidence            222333343333   1111 011 1112211 1         11233   357899999965  5566666544   489


Q ss_pred             CeEEEEEcCch
Q 005191          314 GSRIIVTTRDK  324 (709)
Q Consensus       314 gsrIIvTTR~~  324 (709)
                      ||+|+.|.-..
T Consensus       378 GsKIVl~gd~a  388 (436)
T COG1875         378 GSKIVLTGDPA  388 (436)
T ss_pred             CCEEEEcCCHH
Confidence            99999987543

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.62  E-value=0.054  Score=56.13  Aligned_cols=38  Identities=16%  Similarity=0.254  Sum_probs=30.5

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +...++.|.|++|+|||++|.+++.....+-..++|+.
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis   71 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVT   71 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEE
Confidence            45789999999999999999999876544545667766

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

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

Probab=94.60  E-value=0.22  Score=59.31  Aligned_cols=103  Identities=17%  Similarity=0.247  Sum_probs=66.6

Q ss_pred             CCccccchhhhHHHhhhhcc---C---CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIG---L---PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~---~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      ...+|-++-+..+-+.+...   .   .......+.|+.|+|||.||++++..+.+..+..+-+.           +.+.
T Consensus       562 ~~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~~~Fgse~~~IriD-----------mse~  630 (898)
T KOG1051|consen  562 ERVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAEYVFGSEENFIRLD-----------MSEF  630 (898)
T ss_pred             hhccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHHHHcCCccceEEec-----------hhhh
Confidence            45677777777777766531   1   13567888999999999999999998766555444443           2222


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCce-EEEecCCCC
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKV-FIVLDDVNK  297 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~-LLVLDdv~~  297 (709)
                      ..  ...+.+.+...-..+...+|-+.++++++ +|.||||+.
T Consensus       631 ~e--vskligsp~gyvG~e~gg~LteavrrrP~sVVLfdeIEk  671 (898)
T KOG1051|consen  631 QE--VSKLIGSPPGYVGKEEGGQLTEAVKRRPYSVVLFEEIEK  671 (898)
T ss_pred             hh--hhhccCCCcccccchhHHHHHHHHhcCCceEEEEechhh
Confidence            22  34443333333333355678888888775 677899974

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=94.58  E-value=0.069  Score=55.48  Aligned_cols=117  Identities=15%  Similarity=0.092  Sum_probs=64.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCC----C-CCCCChhHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENF----D-IGTPKIPQY  278 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~----~-~~~~~~~~~  278 (709)
                      +..-++|.|++|.|||||.+.++..+... ...+++... ....- ....++... ...+.....    + .++......
T Consensus       110 ~~~~~~i~g~~g~GKttl~~~l~~~~~~~-~G~i~~~g~-~v~~~-d~~~ei~~~-~~~~~q~~~~~r~~v~~~~~k~~~  185 (270)
T TIGR02858       110 RVLNTLIISPPQCGKTTLLRDLARILSTG-ISQLGLRGK-KVGIV-DERSEIAGC-VNGVPQHDVGIRTDVLDGCPKAEG  185 (270)
T ss_pred             CeeEEEEEcCCCCCHHHHHHHHhCccCCC-CceEEECCE-Eeecc-hhHHHHHHH-hcccccccccccccccccchHHHH
Confidence            35688999999999999999999876543 333333211 11000 111122211 111111110    0 111112222


Q ss_pred             HHHHHc-cCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhh
Q 005191          279 IRDRLQ-RMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTIL  327 (709)
Q Consensus       279 l~~~L~-~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~  327 (709)
                      +...+. ..+-++++|.+...+.+..+...+.   .|..+|+||.+..+.
T Consensus       186 ~~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       186 MMMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVE  232 (270)
T ss_pred             HHHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHH
Confidence            333333 5788999999987776776665542   477899999876553

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=94.57  E-value=0.047  Score=52.79  Aligned_cols=28  Identities=32%  Similarity=0.374  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+++|.|++|+||||+|+.++..+..
T Consensus         3 ~g~~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          3 RGVTVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3569999999999999999999998754

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.57  E-value=0.2  Score=49.67  Aligned_cols=27  Identities=22%  Similarity=0.247  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+++|.|..|.|||||++.++....
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          32 PGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            457999999999999999999877543

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.57  E-value=0.038  Score=54.89  Aligned_cols=30  Identities=37%  Similarity=0.492  Sum_probs=26.5

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..+.+|+|.|.+|.||||+|+.++..+...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            356899999999999999999999987655

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.53  E-value=0.23  Score=51.61  Aligned_cols=37  Identities=16%  Similarity=0.008  Sum_probs=29.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~  240 (709)
                      ...++.|.|.+|+||||++.+++.....+ -..++|+.
T Consensus        29 ~g~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          29 KGELIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            45688999999999999999998876554 34555665

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.52  E-value=0.031  Score=54.55  Aligned_cols=26  Identities=23%  Similarity=0.381  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +..+++|.|++|+||||+|+.++..+
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            35789999999999999999998764

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.

>PTZ00494 tuzin-like protein; Provisional

Probab=94.50  E-value=2.4  Score=46.55  Aligned_cols=165  Identities=14%  Similarity=0.095  Sum_probs=94.1

Q ss_pred             CCCCCCCccccchhhhHHHhhhhc-cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAI-GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      .+..+..+|.|+.|-.-+...|.. +...+|+++++|.-|.|||+|.+....+   .--..+|+. ++..       .+.
T Consensus       366 a~a~~~~~V~R~~eE~~vRqvL~qld~aHPRIvV~TG~~GcGKSslcRsAvrk---E~~paV~VD-VRg~-------EDt  434 (664)
T PTZ00494        366 AAAAEAFEVRREDEEALVRSVLTQMAPSHPRIVALAGGSGGGRCVPCRRAVRV---EGVALVHVD-VGGT-------EDT  434 (664)
T ss_pred             cccccccccchhhHHHHHHHHHhhccCCCCcEEEEecCCCCCchHHHHHHHHH---cCCCeEEEE-ecCC-------cch
Confidence            345678899999999988888875 3345899999999999999999877664   223445554 3332       234


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHH-------HccCceEEEecCC--CChhhh-hhhhcCCCCCCCCeEEEEEcCchh
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDR-------LQRMKVFIVLDDV--NKYGQL-EYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~-------L~~kr~LLVLDdv--~~~~~~-~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      ++.+...++-.+.+.-.+ +.+.+.+.       ..++.-+||+-==  .+..-. .+.. .+.....-++|++---.+.
T Consensus       435 LrsVVKALgV~nve~CGD-lLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~v-aLacDrRlCHvv~EVplES  512 (664)
T PTZ00494        435 LRSVVRALGVSNVEVCGD-LLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVV-SLVSDCQACHIVLAVPMKA  512 (664)
T ss_pred             HHHHHHHhCCCChhhhcc-HHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHH-HHHccchhheeeeechHhh
Confidence            556666776555443322 33333222       2344555555311  111111 1100 1111123456665433322


Q ss_pred             hhh---hcCcceEEEecCCChHHHHHHhhhcc
Q 005191          326 ILE---RYGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       326 v~~---~~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      +-.   ....-..|-+++++.++|.+......
T Consensus       513 LT~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        513 LTPLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hchhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            111   11123578999999999999876554

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=94.48  E-value=0.2  Score=50.25  Aligned_cols=62  Identities=19%  Similarity=0.225  Sum_probs=39.1

Q ss_pred             hhHHHHHHHccCceEEEecCC----CC--hhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEec
Q 005191          275 IPQYIRDRLQRMKVFIVLDDV----NK--YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVE  339 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv----~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L~  339 (709)
                      ..-.+.+.|...|-+|+-|+=    +.  ...+-.++..+.. ..|..||+.|.++.++..+  ++++.+.
T Consensus       149 QRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~-~~g~tii~VTHd~~lA~~~--dr~i~l~  216 (226)
T COG1136         149 QRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNK-ERGKTIIMVTHDPELAKYA--DRVIELK  216 (226)
T ss_pred             HHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHH-hcCCEEEEEcCCHHHHHhC--CEEEEEe
Confidence            455677888889999999975    21  2222223322211 3477899999999988864  3455544

>PRK06547 hypothetical protein; Provisional

Probab=94.47  E-value=0.036  Score=53.61  Aligned_cols=27  Identities=37%  Similarity=0.366  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....+|+|.|++|+||||+|..+++..
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            457899999999999999999998863

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.46  E-value=0.04  Score=54.03  Aligned_cols=93  Identities=18%  Similarity=0.219  Sum_probs=52.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhc--CCCC-CCCCCChhHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL--GENF-DIGTPKIPQYIR  280 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~--~~~~-~~~~~~~~~~l~  280 (709)
                      ....++|.|+.|.|||||++.+...+... ...+.+....+....       ..... .+.  .... ........+.++
T Consensus        24 ~g~~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~-------~~~~~-~~~~~~~~~~~~~~~~~~~~l~   94 (186)
T cd01130          24 ARKNILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLP-------HPNWV-RLVTRPGNVEGSGEVTMADLLR   94 (186)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCC-------CCCEE-EEEEecCCCCCCCccCHHHHHH
Confidence            34689999999999999999988765432 222323211111000       00000 010  0010 011122566777


Q ss_pred             HHHccCceEEEecCCCChhhhhhhh
Q 005191          281 DRLQRMKVFIVLDDVNKYGQLEYFD  305 (709)
Q Consensus       281 ~~L~~kr~LLVLDdv~~~~~~~~l~  305 (709)
                      ..++..+-.++++.+.+.+.+..+.
T Consensus        95 ~~lR~~pd~i~igEir~~ea~~~~~  119 (186)
T cd01130          95 SALRMRPDRIIVGEVRGGEALDLLQ  119 (186)
T ss_pred             HHhccCCCEEEEEccCcHHHHHHHH
Confidence            7788888999999998877665443

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.

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=94.45  E-value=0.12  Score=55.13  Aligned_cols=48  Identities=19%  Similarity=0.250  Sum_probs=34.1

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~  240 (709)
                      .+..+|..+-+...++-|+|++|+|||+|+.+++......      -..++|+.
T Consensus        83 ~lD~~l~GGi~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~  136 (310)
T TIGR02236        83 ELDELLGGGIETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYID  136 (310)
T ss_pred             HHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEE
Confidence            3445555444557899999999999999999998765321      12566776

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.45  E-value=0.07  Score=54.47  Aligned_cols=48  Identities=23%  Similarity=0.247  Sum_probs=36.6

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-++|..+-+...++.|.|.+|+|||+||.++......+-..++|+.
T Consensus         9 ~LD~~l~GG~~~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877         9 GMDEILHGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             hHHHHhcCCCcCCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            444556555566789999999999999999998876545556677776

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.

>PRK00625 shikimate kinase; Provisional

Probab=94.44  E-value=0.03  Score=54.22  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .|.|+|++|+||||+++.+++++.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhC
Confidence            378999999999999999988753

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=94.41  E-value=0.049  Score=56.27  Aligned_cols=37  Identities=27%  Similarity=0.365  Sum_probs=27.7

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|-++|..+-....+.=|+|++|+|||+|+.+++-..
T Consensus        26 ~lD~~L~GGi~~g~itEi~G~~gsGKTql~l~l~~~~   62 (256)
T PF08423_consen   26 SLDELLGGGIPTGSITEIVGESGSGKTQLCLQLAVNV   62 (256)
T ss_dssp             HHHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHHhhCCCCCCCcEEEEEEecccccchHHHHHHHHh
Confidence            4555555433446789999999999999999887643

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.41  E-value=0.062  Score=53.91  Aligned_cols=23  Identities=22%  Similarity=0.114  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .+.+.|+|+.|.|||||.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48999999999999999999875

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

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=94.39  E-value=0.1  Score=54.41  Aligned_cols=35  Identities=14%  Similarity=0.156  Sum_probs=29.1

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceE
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKY  237 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~  237 (709)
                      .+..++.|.|.+|.|||||...+...+.......+
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~~~~V  136 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMRLKDSVPCAV  136 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHhccCCCEEE
Confidence            36899999999999999999999998776654333

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.38  E-value=0.13  Score=52.60  Aligned_cols=125  Identities=14%  Similarity=0.144  Sum_probs=69.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc-ccCCHHHHHHHHHHHhcCC-------CCCCCCCC-
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE-KCGGLVHLRNQVLSKLLGE-------NFDIGTPK-  274 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~-~~~~l~~l~~~ll~~l~~~-------~~~~~~~~-  274 (709)
                      +..+++|+|.+|+|||||++.+..-.... .+.+++..-. ... ......+...+++...+..       ..+.+..+ 
T Consensus        38 ~ge~~glVGESG~GKSTlgr~i~~L~~pt-~G~i~f~g~~-i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          38 EGETLGLVGESGCGKSTLGRLILGLEEPT-SGEILFEGKD-ITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCCEEEEEecCCCCHHHHHHHHHcCcCCC-CceEEEcCcc-hhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            45799999999999999999998754332 2333333110 000 0022334445555554321       11223333 


Q ss_pred             hhHHHHHHHccCceEEEecCCCCh------hhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcC
Q 005191          275 IPQYIRDRLQRMKVFIVLDDVNKY------GQLEYFDGGLDRFGPGSRIIVTTRDKTILERYG  331 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv~~~------~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~  331 (709)
                      ..-.+.+.|.-++-++|.|..-+.      .+.-.++..+.. ..|...+..|-+-.+...++
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq~-~~~lt~lFIsHDL~vv~~is  177 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQE-ELGLTYLFISHDLSVVRYIS  177 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHHH-HhCCeEEEEEEEHHhhhhhc
Confidence            444567778889999999987431      222233322221 23556777777776666543

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=94.38  E-value=0.065  Score=55.53  Aligned_cols=45  Identities=29%  Similarity=0.301  Sum_probs=37.2

Q ss_pred             hhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          196 SLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       196 ~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.|..+-+..+++.|+|.+|+|||+++.++..+...+...++|+.
T Consensus        14 ~~l~GG~p~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs   58 (260)
T COG0467          14 EILGGGLPRGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVS   58 (260)
T ss_pred             HHhcCCCcCCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEE
Confidence            334444466799999999999999999999998888877888887

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=94.36  E-value=0.046  Score=53.22  Aligned_cols=26  Identities=46%  Similarity=0.560  Sum_probs=22.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +|+|.|.+|+||||||..+...+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~~   26 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRVN   26 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            58999999999999999999876543

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=94.36  E-value=0.098  Score=61.01  Aligned_cols=26  Identities=19%  Similarity=0.378  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....++|+|.+|.|||||++.+...+
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g~~  400 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLGFL  400 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45789999999999999999987754

>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=94.33  E-value=0.05  Score=52.37  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=20.8

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +.|+|.+|+|||||++.+++.++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            679999999999999999998754

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=94.30  E-value=0.095  Score=53.45  Aligned_cols=53  Identities=13%  Similarity=0.151  Sum_probs=34.8

Q ss_pred             hhHHHHHHHccCceEEEecCCC------ChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhh
Q 005191          275 IPQYIRDRLQRMKVFIVLDDVN------KYGQLEYFDGGLDRFGPGSRIIVTTRDKTILER  329 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv~------~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~  329 (709)
                      ..-.+.+.|..++=|++||.--      ....+-.++..+.  ..|..||++|-+-.....
T Consensus       146 QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~--~eg~tIl~vtHDL~~v~~  204 (254)
T COG1121         146 QRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELR--QEGKTVLMVTHDLGLVMA  204 (254)
T ss_pred             HHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCcHHhHh
Confidence            4455677888999999999752      2223444444444  238889999988754443

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=94.29  E-value=4  Score=43.15  Aligned_cols=153  Identities=12%  Similarity=0.071  Sum_probs=85.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc---------cc-ceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK---------FE-GKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK  274 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~---------f~-~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~  274 (709)
                      .++..++|..|+||+++|..+++.+-..         .+ ...++. ..+   ......++ +++...+.-...      
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d-~~g---~~i~vd~I-r~l~~~~~~~~~------   86 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFD-IFD---KDLSKSEF-LSAINKLYFSSF------   86 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEec-cCC---CcCCHHHH-HHHHHHhccCCc------
Confidence            5788899999999999999999876211         11 112221 000   10111121 122222211100      


Q ss_pred             hhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCc-hhhhhh-cCcceEEEecCCChHHHHHHh
Q 005191          275 IPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRD-KTILER-YGTHRIYEVEGLNCNEALRLF  350 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~-~~v~~~-~~~~~~~~L~~L~~~ea~~Lf  350 (709)
                              -.+.+=++|+|+++..  ...+.++..+....+++.+|++|.+ ..+.+. .+...++++.+++.++..+.+
T Consensus        87 --------~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l  158 (299)
T PRK07132         87 --------VQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKL  158 (299)
T ss_pred             --------ccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHH
Confidence                    0135668889998754  3456666666655677777765544 344433 234578999999999998877


Q ss_pred             hhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          351 CSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       351 ~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      ....     .+   .+.+..++...+|.--|+..
T Consensus       159 ~~~~-----~~---~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        159 LSKN-----KE---KEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             HHcC-----CC---hhHHHHHHHHcCCHHHHHHH
Confidence            6531     11   12355556666652234444

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=94.29  E-value=0.21  Score=51.36  Aligned_cols=26  Identities=35%  Similarity=0.616  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|+|||||++.++...
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~   49 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVL   49 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35789999999999999999988753

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=94.28  E-value=0.036  Score=53.68  Aligned_cols=24  Identities=25%  Similarity=0.381  Sum_probs=21.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++|.+.|++|+||||+|+.+....
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~~   26 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSVL   26 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            589999999999999999998874

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=94.27  E-value=0.27  Score=52.30  Aligned_cols=48  Identities=27%  Similarity=0.061  Sum_probs=32.5

Q ss_pred             EEEecCCChHHHHHHhhhcccccCCCC-hhhHHHHHHHHHHhcCCchHH
Q 005191          335 IYEVEGLNCNEALRLFCSCAFKENHCP-EDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       335 ~~~L~~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      ++++++++.+|+..++....-.+--.. ...+...+++.-..+|||.-+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            789999999999999877663222111 223344566666679999654

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.26  E-value=0.16  Score=50.03  Aligned_cols=25  Identities=32%  Similarity=0.457  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||++.++..
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999998853

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>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=94.25  E-value=0.057  Score=51.22  Aligned_cols=124  Identities=15%  Similarity=0.164  Sum_probs=64.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRL  283 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L  283 (709)
                      ..+++|.|..|.|||||.+.++..+. .....+++.... ...  .....    ....+.-. ...+..+ ..-.+...+
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~-~~~G~i~~~~~~-~~~--~~~~~----~~~~i~~~-~qlS~G~~~r~~l~~~l   95 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLK-PTSGEILIDGKD-IAK--LPLEE----LRRRIGYV-PQLSGGQRQRVALARAL   95 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCC-CCccEEEECCEE-ccc--CCHHH----HHhceEEE-eeCCHHHHHHHHHHHHH
Confidence            47999999999999999999987543 234445554211 100  00111    11111000 0011122 333455666


Q ss_pred             ccCceEEEecCCC---ChhhhhhhhcCCCCC-CCCeEEEEEcCchhhhhhcCcceEEEe
Q 005191          284 QRMKVFIVLDDVN---KYGQLEYFDGGLDRF-GPGSRIIVTTRDKTILERYGTHRIYEV  338 (709)
Q Consensus       284 ~~kr~LLVLDdv~---~~~~~~~l~~~l~~~-~~gsrIIvTTR~~~v~~~~~~~~~~~L  338 (709)
                      ...+-++++|+..   +......+...+... ..+..+|++|.+....... .++++.+
T Consensus        96 ~~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~-~d~i~~l  153 (157)
T cd00267          96 LLNPDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA-ADRVIVL  153 (157)
T ss_pred             hcCCCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh-CCEEEEE
Confidence            6778899999984   222222332222111 2246788888877655543 2344444

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.

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.23  E-value=0.076  Score=54.83  Aligned_cols=42  Identities=19%  Similarity=0.300  Sum_probs=33.0

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      .+|...+....++..+|+|+|.||+|||||...+..++..+-
T Consensus        38 ~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G   79 (323)
T COG1703          38 RELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERG   79 (323)
T ss_pred             HHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCC
Confidence            345555554556788999999999999999999998876553

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=94.19  E-value=0.22  Score=53.62  Aligned_cols=48  Identities=17%  Similarity=0.158  Sum_probs=32.9

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh--c----ccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ--K----FEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~----f~~~~~v~  240 (709)
                      .|-++|..+-+...+.-|+|++|+|||+|+.+++-...-  .    -...+|+.
T Consensus       114 ~LD~lLgGGi~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyId  167 (344)
T PLN03187        114 ALDELLGGGIETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYID  167 (344)
T ss_pred             hHHhhcCCCCCCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEE
Confidence            344555544455788999999999999999998754321  1    13556776

>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=94.18  E-value=0.084  Score=57.26  Aligned_cols=102  Identities=19%  Similarity=0.292  Sum_probs=57.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      .++=+=|||..|.|||.|+-.+|+.+...-..++-             .......+-+.+....   ...+....+.+.+
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~H-------------Fh~Fm~~vh~~l~~~~---~~~~~l~~va~~l  124 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVH-------------FHEFMLDVHSRLHQLR---GQDDPLPQVADEL  124 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCcccccccc-------------ccHHHHHHHHHHHHHh---CCCccHHHHHHHH
Confidence            46778899999999999999999975432111111             1123333333331111   2222455666777


Q ss_pred             ccCceEEEecCCC--Chh---hhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          284 QRMKVFIVLDDVN--KYG---QLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       284 ~~kr~LLVLDdv~--~~~---~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      .++..||.||.+.  +..   -+..+...+-  ..|. +||+|.|.
T Consensus       125 ~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gv-vlVaTSN~  167 (362)
T PF03969_consen  125 AKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGV-VLVATSNR  167 (362)
T ss_pred             HhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCC-EEEecCCC
Confidence            7888899999873  332   2344444332  3455 55555444

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

>PRK13947 shikimate kinase; Provisional

Probab=94.18  E-value=0.036  Score=53.30  Aligned_cols=24  Identities=33%  Similarity=0.412  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      -|.|.|++|+||||+|+.+++++.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~lg   26 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATTLS   26 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999998864

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=94.17  E-value=0.032  Score=54.31  Aligned_cols=23  Identities=30%  Similarity=0.423  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|.|.|++|+||||+|+.+++++
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999998865

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>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=94.17  E-value=0.05  Score=52.40  Aligned_cols=45  Identities=27%  Similarity=0.291  Sum_probs=34.2

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +||.+..+.++.+.+..-......|.|+|..|+||+.+|+.+.+.
T Consensus         1 liG~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            478888888888887754334467779999999999999999884

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 ....

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.17  E-value=0.067  Score=52.97  Aligned_cols=38  Identities=21%  Similarity=0.330  Sum_probs=29.0

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +...+++|+|++|+||||||+.+...+...-...+++.
T Consensus        22 ~~~~~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld   59 (198)
T PRK03846         22 HKGVVLWFTGLSGSGKSTVAGALEEALHELGVSTYLLD   59 (198)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEc
Confidence            35679999999999999999999997754433344443

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=94.14  E-value=0.038  Score=51.80  Aligned_cols=24  Identities=33%  Similarity=0.535  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +|.|.|++|+||||+|+.+++++.
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~g   25 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLG   25 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhC
Confidence            689999999999999999998753

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=94.13  E-value=0.11  Score=55.68  Aligned_cols=131  Identities=18%  Similarity=0.186  Sum_probs=68.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhccc-------ceEEEe------eecccccccCCHHHHHHHHHHHhcC------
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-------GKYFMA------NVREESEKCGGLVHLRNQVLSKLLG------  265 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-------~~~~v~------~~~~~~~~~~~l~~l~~~ll~~l~~------  265 (709)
                      .-++.|+|.+|+||||+.+.+.......-+       ..+=+.      .+....+...+-..+++++.+..+.      
T Consensus       409 GdvvaVvGqSGaGKttllRmi~G~~~~~~ee~y~p~sg~v~vp~nt~~a~iPge~Ep~f~~~tilehl~s~tGD~~~Ave  488 (593)
T COG2401         409 GDVVAVVGQSGAGKTTLLRMILGAQKGRGEEKYRPDSGKVEVPKNTVSALIPGEYEPEFGEVTILEHLRSKTGDLNAAVE  488 (593)
T ss_pred             CCeEEEEecCCCCcchHHHHHHHHhhcccccccCCCCCceeccccchhhccCcccccccCchhHHHHHhhccCchhHHHH
Confidence            458899999999999999998765322211       000000      0001111112222344444333322      


Q ss_pred             -------C--------CCCCCCCC-hhHHHHHHHccCceEEEecCCCC-hh--hhhhhhcCCCCC--CCCeEEEEEcCch
Q 005191          266 -------E--------NFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNK-YG--QLEYFDGGLDRF--GPGSRIIVTTRDK  324 (709)
Q Consensus       266 -------~--------~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~-~~--~~~~l~~~l~~~--~~gsrIIvTTR~~  324 (709)
                             .        ..+.+..+ -...|...+.+++-+++.|.... .+  ....+...+...  ..|+.+++.|+.+
T Consensus       489 ILnraGlsDAvlyRr~f~ELStGQKeR~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe~giTlivvThrp  568 (593)
T COG2401         489 ILNRAGLSDAVLYRRKFSELSTGQKERAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELAREAGITLIVVTHRP  568 (593)
T ss_pred             HHHhhccchhhhhhccHhhcCcchHHHHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHHhCCeEEEEecCH
Confidence                   1        01122222 45567777888989999998742 11  111111111111  2577788888888


Q ss_pred             hhhhhcCcceE
Q 005191          325 TILERYGTHRI  335 (709)
Q Consensus       325 ~v~~~~~~~~~  335 (709)
                      ++...+.++..
T Consensus       569 Ev~~AL~PD~l  579 (593)
T COG2401         569 EVGNALRPDTL  579 (593)
T ss_pred             HHHhccCCcee
Confidence            88877766544

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

Probab=94.10  E-value=1.4  Score=51.12  Aligned_cols=93  Identities=22%  Similarity=0.320  Sum_probs=54.0

Q ss_pred             CccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCH
Q 005191          183 GLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGL  252 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l  252 (709)
                      ..=|.++-..+|.+-+..          +-....-|.++|++|.|||-||++|+.+.+-.|     +. +   .    +.
T Consensus       673 DVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL~F-----lS-V---K----GP  739 (953)
T KOG0736|consen  673 DVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSLNF-----LS-V---K----GP  739 (953)
T ss_pred             cccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhceeeE-----Ee-e---c----CH
Confidence            344566666666665532          112245688999999999999999998865443     22 1   1    11


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK  297 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~  297 (709)
                       +++...+   ++     ++....+...+.-..++|+|.||.+++
T Consensus       740 -ELLNMYV---Gq-----SE~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 -ELLNMYV---GQ-----SEENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             -HHHHHHh---cc-----hHHHHHHHHHHhhccCCeEEEeccccc
Confidence             1211111   11     111134444444455899999999964

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=94.07  E-value=0.24  Score=49.33  Aligned_cols=59  Identities=19%  Similarity=0.317  Sum_probs=34.4

Q ss_pred             HHHHHccCceEEEecCCCC---hhhhh-hhhcCCCCCC-C-CeEEEEEcCchhhhhhcCcceEEEec
Q 005191          279 IRDRLQRMKVFIVLDDVNK---YGQLE-YFDGGLDRFG-P-GSRIIVTTRDKTILERYGTHRIYEVE  339 (709)
Q Consensus       279 l~~~L~~kr~LLVLDdv~~---~~~~~-~l~~~l~~~~-~-gsrIIvTTR~~~v~~~~~~~~~~~L~  339 (709)
                      +...+..++-++++|+...   ....+ .+...+.... . +..||++|.+......  .+.++.+.
T Consensus       132 la~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~~~~~--~d~i~~l~  196 (204)
T cd03240         132 LAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVDA--ADHIYRVE  196 (204)
T ss_pred             HHHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHHHHhh--CCEEEEEe
Confidence            4556677899999999842   22223 3333222212 2 5578888888766543  34555554

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily

Probab=94.07  E-value=0.83  Score=50.92  Aligned_cols=72  Identities=22%  Similarity=0.279  Sum_probs=44.7

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh-hcccceEEEeeecccccccCCHHHHHHHHHHH
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS-QKFEGKYFMANVREESEKCGGLVHLRNQVLSK  262 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~  262 (709)
                      ..|...-...|.+++. +-....++.|.|.+|+|||++|..++.... .+-..++|++ ..      ....++...++..
T Consensus       174 ~~gi~tG~~~LD~~~~-G~~~g~liviag~pg~GKT~~al~ia~~~a~~~g~~v~~fS-lE------m~~~~l~~Rl~~~  245 (421)
T TIGR03600       174 LTGLSTGLPKLDRLTN-GLVKGDLIVIGARPSMGKTTLALNIAENVALREGKPVLFFS-LE------MSAEQLGERLLAS  245 (421)
T ss_pred             CcceeCCChhHHHHhc-CCCCCceEEEEeCCCCCHHHHHHHHHHHHHHhCCCcEEEEE-CC------CCHHHHHHHHHHH
Confidence            4444545555555554 333467899999999999999999997764 2223344444 11      3345566666655


Q ss_pred             h
Q 005191          263 L  263 (709)
Q Consensus       263 l  263 (709)
                      .
T Consensus       246 ~  246 (421)
T TIGR03600       246 K  246 (421)
T ss_pred             H
Confidence            4

Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.

>PRK05439 pantothenate kinase; Provisional

Probab=94.05  E-value=0.094  Score=55.45  Aligned_cols=30  Identities=27%  Similarity=0.309  Sum_probs=25.5

Q ss_pred             CCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          202 LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       202 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+-+|+|.|.+|+||||+|+.+...+..
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            345789999999999999999998886643

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

Probab=94.03  E-value=0.66  Score=53.23  Aligned_cols=151  Identities=17%  Similarity=0.147  Sum_probs=77.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHh-cCCCCCCCCCChhHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKL-LGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l-~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..-|.++|++|.|||-||.+++....-+     |+. +       .+.     +++... +.     +.........+.-
T Consensus       701 ~~giLLyGppGcGKT~la~a~a~~~~~~-----fis-v-------KGP-----ElL~KyIGa-----SEq~vR~lF~rA~  757 (952)
T KOG0735|consen  701 RTGILLYGPPGCGKTLLASAIASNSNLR-----FIS-V-------KGP-----ELLSKYIGA-----SEQNVRDLFERAQ  757 (952)
T ss_pred             ccceEEECCCCCcHHHHHHHHHhhCCee-----EEE-e-------cCH-----HHHHHHhcc-----cHHHHHHHHHHhh
Confidence            3468899999999999999988763222     233 1       111     122222 21     1111333344444


Q ss_pred             ccCceEEEecCCCCh-------------hhhhhhhcCCCCC--CCCeEEEE-EcCchhhhhhc----CcceEEEecCCCh
Q 005191          284 QRMKVFIVLDDVNKY-------------GQLEYFDGGLDRF--GPGSRIIV-TTRDKTILERY----GTHRIYEVEGLNC  343 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~-------------~~~~~l~~~l~~~--~~gsrIIv-TTR~~~v~~~~----~~~~~~~L~~L~~  343 (709)
                      .-++|+|.+|..++.             ....+++..+...  -.|.-|+- |||..-+-+..    ..++.+.-+.-+.
T Consensus       758 ~a~PCiLFFDEfdSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~  837 (952)
T KOG0735|consen  758 SAKPCILFFDEFDSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDE  837 (952)
T ss_pred             ccCCeEEEeccccccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCc
Confidence            569999999999642             2345565554411  24555554 55654322211    1233334444455


Q ss_pred             HHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH
Q 005191          344 NEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       344 ~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA  381 (709)
                      .|-++++....-....+.   .-..+.++.++.|.--|
T Consensus       838 ~eRl~il~~ls~s~~~~~---~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  838 PERLEILQVLSNSLLKDT---DVDLECLAQKTDGFTGA  872 (952)
T ss_pred             HHHHHHHHHHhhccCCcc---ccchHHHhhhcCCCchh
Confidence            566666654431111111   12245666667666543

>TIGR01069 mutS2 MutS2 family protein

Probab=94.02  E-value=0.089  Score=62.76  Aligned_cols=110  Identities=13%  Similarity=0.035  Sum_probs=56.0

Q ss_pred             cCceEEEecCCCC---hhhhhh----hhcCCCCCCCCeEEEEEcCchhhhhhcC-cceE--EEecCCChHHHHHHhhhcc
Q 005191          285 RMKVFIVLDDVNK---YGQLEY----FDGGLDRFGPGSRIIVTTRDKTILERYG-THRI--YEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       285 ~kr~LLVLDdv~~---~~~~~~----l~~~l~~~~~gsrIIvTTR~~~v~~~~~-~~~~--~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ..+-|+++|....   ......    ++..+.  ..|+.+|+||....+..... ...+  ..+. ++. +... +..+.
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~-~~l~-p~Ykl  475 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVL-FDE-ETLS-PTYKL  475 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcC-CCCc-eEEEE
Confidence            4789999999843   222222    222222  35778999999886543211 1111  1111 111 1111 11111


Q ss_pred             cccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHHh
Q 005191          355 FKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNL  404 (709)
Q Consensus       355 ~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~L  404 (709)
                       ....+.   ...+-.|++++ |+|-.+..-|..+.+....++...+++|
T Consensus       476 -~~G~~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L  520 (771)
T TIGR01069       476 -LKGIPG---ESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKL  520 (771)
T ss_pred             -CCCCCC---CcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence             111222   12366676665 8888888888877665445555555554

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=93.99  E-value=0.078  Score=50.53  Aligned_cols=36  Identities=25%  Similarity=0.320  Sum_probs=29.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      +..+|-++|.+|.||||||.++.+.+....-....+
T Consensus        22 ~~~viW~TGLSGsGKSTiA~ale~~L~~~G~~~y~L   57 (197)
T COG0529          22 KGAVIWFTGLSGSGKSTIANALEEKLFAKGYHVYLL   57 (197)
T ss_pred             CCeEEEeecCCCCCHHHHHHHHHHHHHHcCCeEEEe
Confidence            467999999999999999999999887764443333

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.99  E-value=0.27  Score=53.93  Aligned_cols=25  Identities=28%  Similarity=0.319  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++.++|++|+||||++..++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            4689999999999999999998754

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=93.97  E-value=0.074  Score=57.66  Aligned_cols=95  Identities=13%  Similarity=0.120  Sum_probs=54.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccc---eEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEG---KYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD  281 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~---~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~  281 (709)
                      ...|.|+|+.|.||||++..+.+.+....+.   .+.+.+.-+.     .+..... ....+...............++.
T Consensus       134 ~glilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~-----~~~~~~~-~~~~v~Q~~v~~~~~~~~~~l~~  207 (358)
T TIGR02524       134 EGIVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEF-----VYDEIET-ISASVCQSEIPRHLNNFAAGVRN  207 (358)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceE-----ecccccc-ccceeeeeeccccccCHHHHHHH
Confidence            4799999999999999999998877544332   2222211111     0111000 00000001111111226677888


Q ss_pred             HHccCceEEEecCCCChhhhhhhh
Q 005191          282 RLQRMKVFIVLDDVNKYGQLEYFD  305 (709)
Q Consensus       282 ~L~~kr~LLVLDdv~~~~~~~~l~  305 (709)
                      .|+..+-.+++..+.+.+..+..+
T Consensus       208 aLR~~Pd~i~vGEiRd~et~~~al  231 (358)
T TIGR02524       208 ALRRKPHAILVGEARDAETISAAL  231 (358)
T ss_pred             HhccCCCEEeeeeeCCHHHHHHHH
Confidence            899999999999998877765443

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PTZ00088 adenylate kinase 1; Provisional

Probab=93.97  E-value=0.07  Score=54.09  Aligned_cols=23  Identities=26%  Similarity=0.471  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      -|.|.|++|+||||+|+.+++++
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~~   30 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKKE   30 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            38899999999999999998874

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.97  E-value=0.63  Score=46.46  Aligned_cols=62  Identities=15%  Similarity=0.193  Sum_probs=37.7

Q ss_pred             hhHHHHHHHccCceEEEecCCCChhh---hhhhhcCCCC-CCCCeEEEEEcCchhhhhhcCcceEE
Q 005191          275 IPQYIRDRLQRMKVFIVLDDVNKYGQ---LEYFDGGLDR-FGPGSRIIVTTRDKTILERYGTHRIY  336 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv~~~~~---~~~l~~~l~~-~~~gsrIIvTTR~~~v~~~~~~~~~~  336 (709)
                      ....+.+.+--+|-+.|||.-++--+   ++.+...+.. ..+|+-+|+.|....++....++.++
T Consensus       151 KR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         151 KRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             HHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence            45556666666789999999876333   3222221111 13466777777778788877655544

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=93.96  E-value=0.14  Score=50.07  Aligned_cols=118  Identities=16%  Similarity=0.063  Sum_probs=61.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHH--HHh-cCCCC--CCCCC-C----
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVL--SKL-LGENF--DIGTP-K----  274 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll--~~l-~~~~~--~~~~~-~----  274 (709)
                      ...|.|+|..|-||||.|...+-+...+--.+..+.-+.... . .+-...++.+-  ... .+...  ...+. +    
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~ra~g~G~~V~ivQFlKg~~-~-~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMALRAVGHGKKVGVVQFIKGAW-S-TGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCCC-c-cCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            468889999999999999999887655433333333222211 1 22223333210  000 01110  00011 0    


Q ss_pred             ---hhHHHHHHHcc-CceEEEecCCCC-----hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          275 ---IPQYIRDRLQR-MKVFIVLDDVNK-----YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       275 ---~~~~l~~~L~~-kr~LLVLDdv~~-----~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                         ..+..++.+.. +-=|||||.+..     .-..+.+...+....++..||+|-|+.
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~  158 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGA  158 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCC
Confidence               12223334444 445999999832     222333444343345678999999986

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

Probab=93.96  E-value=0.2  Score=50.56  Aligned_cols=53  Identities=26%  Similarity=0.436  Sum_probs=38.1

Q ss_pred             CccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          183 GLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..=|-.++++.|.+....           +-+.+.-|.++|++|.|||-+|++++++.     ..+|+.
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravanrt-----dacfir  241 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVANRT-----DACFIR  241 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhccc-----CceEEe
Confidence            455667777777665432           22346778899999999999999999974     345665

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=93.96  E-value=0.28  Score=59.44  Aligned_cols=225  Identities=15%  Similarity=0.150  Sum_probs=107.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcc----cceEEEeeecccccccCCHH--HHHHHHHHHhcCCCCCCCCCChhHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKF----EGKYFMANVREESEKCGGLV--HLRNQVLSKLLGENFDIGTPKIPQY  278 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f----~~~~~v~~~~~~~~~~~~l~--~l~~~ll~~l~~~~~~~~~~~~~~~  278 (709)
                      ..-+.|+|.+|.||||+...++-....+.    +..+++. +...........  .+..-+...+.....   .......
T Consensus       222 ~~~~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~-l~~~~~~~~~~~q~~~~~~l~~~~~~~~~---~~~~~~~  297 (824)
T COG5635         222 YAKLLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLL-LNAFALARKFEKQLSLIDYLAEELFSQGI---AKQLIEA  297 (824)
T ss_pred             hhheeeecCCCCCceehHHHHHHHhccCcCCcccCceeee-chhHHHhhhhHhhccHHHHHHHHHhccCC---cchhhHH
Confidence            34788999999999999999987644332    2223332 111000001111  222222222211111   0112222


Q ss_pred             HHHHHccCceEEEecCCCChh---------hhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEecCCChHHHHHH
Q 005191          279 IRDRLQRMKVFIVLDDVNKYG---------QLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVEGLNCNEALRL  349 (709)
Q Consensus       279 l~~~L~~kr~LLVLDdv~~~~---------~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L~~L~~~ea~~L  349 (709)
                      ..+.+...++++.+|.++...         .+..+.+.    -+.+++|+|+|....-........+++..+.+..-...
T Consensus       298 ~~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~~----~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~  373 (824)
T COG5635         298 HQELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQE----YPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQF  373 (824)
T ss_pred             HHHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhhh----ccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHH
Confidence            357888999999999986432         12333333    35789999999875443332334445555554433322


Q ss_pred             hh--------hcccccCCCC--hhhHH---HHHHHHHHhcCCchHHHHHhhhhcC------CChhhHHHHHHHhhcCCCC
Q 005191          350 FC--------SCAFKENHCP--EDLLK---HSETAAHYAKGNPLALQVLGSSFHR------KSKPDWVNTLNNLKRISDS  410 (709)
Q Consensus       350 f~--------~~a~~~~~~~--~~~~~---~~~~Iv~~~gGlPLAL~~la~~L~~------~~~~ew~~~L~~L~~~~~~  410 (709)
                      ..        ...++.....  .....   -..+-.+.....|+.|.+.+..-..      ...+-++..++.+-...+.
T Consensus       374 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~~~~~~d~  453 (824)
T COG5635         374 ILYQWLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDALLGREDE  453 (824)
T ss_pred             HHHHHHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHHHHhccch
Confidence            21        1111111111  01111   1122334447889999888744431      2344566666654332221


Q ss_pred             cHHhHHHHhhcCCCH-HHHH-HHHhcccc
Q 005191          411 DIYGVLKIGYDELSW-EEKN-LFLDIACF  437 (709)
Q Consensus       411 ~i~~~L~~Sy~~L~~-~~k~-~fl~lA~F  437 (709)
                      .=.......|..+.. .... ++..+|.+
T Consensus       454 ~~~~~~~~~~~~~~~~~~~~~l~~~la~~  482 (824)
T COG5635         454 TRGIKWSKTYAKLTTDQQDKWLLQLLAAL  482 (824)
T ss_pred             hhhhcchhhhcccchHHHHHHHHHHHHHH
Confidence            111223344544433 3334 55555443

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=93.95  E-value=0.3  Score=48.89  Aligned_cols=25  Identities=28%  Similarity=0.272  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|.|..|.|||||.+.++..
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCC
Confidence            4568999999999999999999864

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=93.92  E-value=0.1  Score=52.82  Aligned_cols=48  Identities=21%  Similarity=0.203  Sum_probs=34.5

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-++|..+-+....+.|.|.+|+|||+||.+++.....+-...+|+.
T Consensus         8 ~LD~~l~GGi~~G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881         8 GLDKLLEGGIPRGFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             hHHHhhcCCCcCCeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            344445444445789999999999999999998765444445666765

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.

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=93.90  E-value=0.2  Score=49.39  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....++|.|+.|.|||||.+.++.-.
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            45789999999999999999987754

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=93.89  E-value=0.062  Score=54.34  Aligned_cols=48  Identities=29%  Similarity=0.290  Sum_probs=34.5

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~  240 (709)
                      .|-++|..+-+...++.|.|.+|+|||+|+.+++.....+ -..++|+.
T Consensus         7 ~LD~~l~GGip~gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs   55 (226)
T PF06745_consen    7 GLDELLGGGIPKGSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVS   55 (226)
T ss_dssp             THHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEE
T ss_pred             hHHHhhcCCCCCCcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEE
Confidence            3445554444557899999999999999999988765555 55666666

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 ....

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=93.86  E-value=0.3  Score=57.55  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....|+|+|.+|+|||||++.+..
T Consensus       498 ~Ge~vaIvG~SGsGKSTL~KLL~g  521 (709)
T COG2274         498 PGEKVAIVGRSGSGKSTLLKLLLG  521 (709)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            457899999999999999998865

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=93.85  E-value=0.065  Score=52.30  Aligned_cols=35  Identities=29%  Similarity=0.389  Sum_probs=29.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      .+++.|+|++|+|||||+..+......+|...+..
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~   36 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSH   36 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceee
Confidence            47899999999999999999999887777544443

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=93.85  E-value=0.2  Score=48.84  Aligned_cols=26  Identities=35%  Similarity=0.505  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....++|.|..|.|||||.+.++...
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~   50 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEALFGLR   50 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999988753

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. In members of 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.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.84  E-value=0.048  Score=52.93  Aligned_cols=25  Identities=28%  Similarity=0.438  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+++|.|++|+|||||++.++..+.
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHcC
Confidence            4789999999999999999988653

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=93.84  E-value=0.047  Score=53.60  Aligned_cols=26  Identities=31%  Similarity=0.437  Sum_probs=23.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+|+|-||=|+||||||+.+++++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC
Confidence            46899999999999999999998865

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=93.82  E-value=0.14  Score=54.69  Aligned_cols=29  Identities=24%  Similarity=0.481  Sum_probs=25.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +..+++++|++|+||||++..++..+...
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            46899999999999999999999877654

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=93.81  E-value=0.097  Score=56.92  Aligned_cols=94  Identities=19%  Similarity=0.189  Sum_probs=54.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhccc-ceEE-EeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYF-MANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~-v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..+.|+|+.|.||||++..+.+.+....+ ..++ +.+..+..-  .....+    .. ........+.......++..|
T Consensus       150 GlilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~--~~~~~~----~~-~~q~evg~~~~~~~~~l~~aL  222 (372)
T TIGR02525       150 GLGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYIL--GSPDDL----LP-PAQSQIGRDVDSFANGIRLAL  222 (372)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhcc--CCCcee----ec-ccccccCCCccCHHHHHHHhh
Confidence            47889999999999999999887654432 2232 221111100  000000    00 000011111123667788899


Q ss_pred             ccCceEEEecCCCChhhhhhhhc
Q 005191          284 QRMKVFIVLDDVNKYGQLEYFDG  306 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~~~~~~l~~  306 (709)
                      +..+=.|+++.+.+.+..+..+.
T Consensus       223 R~~PD~I~vGEiRd~et~~~al~  245 (372)
T TIGR02525       223 RRAPKIIGVGEIRDLETFQAAVL  245 (372)
T ss_pred             ccCCCEEeeCCCCCHHHHHHHHH
Confidence            99999999999998887775443

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).

>PRK06217 hypothetical protein; Validated

Probab=93.81  E-value=0.045  Score=53.46  Aligned_cols=23  Identities=26%  Similarity=0.445  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|.|.|.+|.||||||+++...+
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~l   25 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAERL   25 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            48899999999999999999875

>PRK14738 gmk guanylate kinase; Provisional

Probab=93.80  E-value=0.053  Score=54.08  Aligned_cols=29  Identities=24%  Similarity=0.246  Sum_probs=24.2

Q ss_pred             ccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          200 IGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       200 ~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+....+.+.|+|++|+|||||+..+...
T Consensus         8 ~~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          8 NKPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            34456789999999999999999998754

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.79  E-value=0.042  Score=51.58  Aligned_cols=23  Identities=22%  Similarity=0.557  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++.|.|++|+||||+|+.+....
T Consensus         1 li~l~G~~GsGKST~a~~l~~~~   23 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAERL   23 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhhc
Confidence            36789999999999999998863

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=93.78  E-value=0.078  Score=53.57  Aligned_cols=24  Identities=25%  Similarity=0.087  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +.+++.|+|+.|.||||+.+.+..
T Consensus        29 ~~~~~~l~G~n~~GKstll~~i~~   52 (222)
T cd03285          29 KSRFLIITGPNMGGKSTYIRQIGV   52 (222)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHH
Confidence            468999999999999999998775

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

>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=93.76  E-value=0.07  Score=51.97  Aligned_cols=33  Identities=24%  Similarity=0.139  Sum_probs=26.6

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.|.|++|+|||+||.+++.....+-..+.|+.
T Consensus         2 ~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           2 TLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            678999999999999999887655545666665

A related protein is found in archaea.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=93.75  E-value=0.041  Score=54.40  Aligned_cols=23  Identities=43%  Similarity=0.703  Sum_probs=20.9

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|.|++|+||||||+.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998865

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.

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=93.74  E-value=0.1  Score=55.48  Aligned_cols=110  Identities=15%  Similarity=0.173  Sum_probs=60.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ....+.|.|..|.|||||++.+...+.... ..+.+.+..+..........    +.  ..............+.+...|
T Consensus       143 ~~~~ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~~~~~~----l~--~~~~~~~~~~~~~~~~l~~~L  215 (308)
T TIGR02788       143 SRKNIIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPHPNYVH----LF--YSKGGQGLAKVTPKDLLQSCL  215 (308)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCCCCEEE----EE--ecCCCCCcCccCHHHHHHHHh
Confidence            346899999999999999999887654332 23333322221111000000    00  001111111223666777888


Q ss_pred             ccCceEEEecCCCChhhhhhhhcCCCCCCCCeE-EEEEcCch
Q 005191          284 QRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSR-IIVTTRDK  324 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsr-IIvTTR~~  324 (709)
                      +..+-.+++|.+...+.++.+. ...   .|.. ++.|+...
T Consensus       216 r~~pd~ii~gE~r~~e~~~~l~-a~~---~g~~~~i~T~Ha~  253 (308)
T TIGR02788       216 RMRPDRIILGELRGDEAFDFIR-AVN---TGHPGSITTLHAG  253 (308)
T ss_pred             cCCCCeEEEeccCCHHHHHHHH-HHh---cCCCeEEEEEeCC
Confidence            8899999999998866655433 322   2332 45666544

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.

>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=93.73  E-value=0.046  Score=50.83  Aligned_cols=23  Identities=30%  Similarity=0.559  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|.|.|++|+||||+|+.++.++
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999999875

>PRK15115 response regulator GlrR; Provisional

Probab=93.70  E-value=1.2  Score=49.94  Aligned_cols=47  Identities=17%  Similarity=0.172  Sum_probs=34.5

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..++|....+..+.+....-......+.|.|.+|+|||++|+.+.+.
T Consensus       134 ~~lig~s~~~~~~~~~~~~~a~~~~~vli~Ge~GtGk~~lA~~ih~~  180 (444)
T PRK15115        134 EAIVTRSPLMLRLLEQARMVAQSDVSVLINGQSGTGKEILAQAIHNA  180 (444)
T ss_pred             hcccccCHHHHHHHHHHHhhccCCCeEEEEcCCcchHHHHHHHHHHh
Confidence            35788887777766655432233456779999999999999988774

>PRK05973 replicative DNA helicase; Provisional

Probab=93.69  E-value=0.1  Score=52.96  Aligned_cols=37  Identities=19%  Similarity=0.048  Sum_probs=29.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...++.|.|.+|+|||++|.+++.....+-..++|+.
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~a~~Ge~vlyfS   99 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEAMKSGRTGVFFT   99 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4678999999999999999999887655544555554

>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=93.68  E-value=0.053  Score=51.10  Aligned_cols=88  Identities=22%  Similarity=0.273  Sum_probs=44.5

Q ss_pred             EEccCCCchhHHHHHHHHHhhhcccceEEEe---eecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc-
Q 005191          210 IWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA---NVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR-  285 (709)
Q Consensus       210 I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~---~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~-  285 (709)
                      |.|+||+||||+|+.++.++.  |   ..++   .++.......   .+...+...+. .....++.-....+...+.. 
T Consensus         1 i~G~PgsGK~t~~~~la~~~~--~---~~is~~~llr~~~~~~s---~~g~~i~~~l~-~g~~vp~~~v~~ll~~~l~~~   71 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYG--L---VHISVGDLLREEIKSDS---ELGKQIQEYLD-NGELVPDELVIELLKERLEQP   71 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHT--S---EEEEHHHHHHHHHHTTS---HHHHHHHHHHH-TTSS--HHHHHHHHHHHHHSG
T ss_pred             CcCCCCCChHHHHHHHHHhcC--c---ceechHHHHHHHHhhhh---HHHHHHHHHHH-hhccchHHHHHHHHHHHHhhh
Confidence            689999999999999998741  2   2232   1111111101   11122222221 11111211155566666553 


Q ss_pred             -CceEEEecCC-CChhhhhhhhc
Q 005191          286 -MKVFIVLDDV-NKYGQLEYFDG  306 (709)
Q Consensus       286 -kr~LLVLDdv-~~~~~~~~l~~  306 (709)
                       ..--+|||+. .+..+.+.+..
T Consensus        72 ~~~~g~ildGfPrt~~Qa~~l~~   94 (151)
T PF00406_consen   72 PCNRGFILDGFPRTLEQAEALEE   94 (151)
T ss_dssp             GTTTEEEEESB-SSHHHHHHHHH
T ss_pred             cccceeeeeeccccHHHHHHHHH
Confidence             2456789999 55666666554

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 ....

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.68  E-value=0.045  Score=53.61  Aligned_cols=23  Identities=39%  Similarity=0.573  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|.|.+|+||||||+.++..+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            58999999999999999998875

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.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=93.67  E-value=0.14  Score=54.74  Aligned_cols=40  Identities=20%  Similarity=0.278  Sum_probs=30.1

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ++.+.+....+...+|+|.|.+|+|||||+..+...+...
T Consensus        44 ~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~l~~~   83 (332)
T PRK09435         44 ELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMHLIEQ   83 (332)
T ss_pred             HHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3444443323467899999999999999999998877654

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=93.66  E-value=0.22  Score=49.35  Aligned_cols=25  Identities=24%  Similarity=0.445  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|..|.|||||.+.++..
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4579999999999999999998775

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=93.66  E-value=0.14  Score=50.75  Aligned_cols=108  Identities=18%  Similarity=0.150  Sum_probs=57.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc---c-cceEEEeee-cccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK---F-EGKYFMANV-REESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYI  279 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~---f-~~~~~v~~~-~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l  279 (709)
                      .-..|.|++|+|||||.+.+++-++..   | +..+-+.+- ++......+..+.  ++...+     +.-+.. ..+-+
T Consensus       138 lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~--~~g~R~-----dVld~cpk~~gm  210 (308)
T COG3854         138 LNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQH--GRGRRM-----DVLDPCPKAEGM  210 (308)
T ss_pred             eeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchh--hhhhhh-----hhcccchHHHHH
Confidence            336788999999999999999876554   3 223322211 1111100111111  011111     111111 12222


Q ss_pred             HHHHc-cCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCc
Q 005191          280 RDRLQ-RMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRD  323 (709)
Q Consensus       280 ~~~L~-~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~  323 (709)
                      ....+ ..+=++|.|.+...++..++...+   ..|.++|.|..-
T Consensus       211 mmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG  252 (308)
T COG3854         211 MMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHG  252 (308)
T ss_pred             HHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeecc
Confidence            22222 357799999998877777776654   467777777653

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=93.64  E-value=0.23  Score=48.46  Aligned_cols=28  Identities=25%  Similarity=0.388  Sum_probs=24.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++.|.|.+|.||||+|+.+...+..
T Consensus        17 ~~~~i~i~G~~GsGKstla~~l~~~l~~   44 (184)
T TIGR00455        17 RGVVIWLTGLSGSGKSTIANALEKKLES   44 (184)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4579999999999999999999987653

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=93.62  E-value=0.095  Score=57.23  Aligned_cols=50  Identities=22%  Similarity=0.184  Sum_probs=34.8

Q ss_pred             CccccchhhhHHHhhhhcc------------CCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          183 GLIGLESHVEQVRSLLAIG------------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .++|.++..+.+.-.+...            ...++-|.++|++|+|||++|+.++..+...
T Consensus        13 ~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~   74 (441)
T TIGR00390        13 YIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   74 (441)
T ss_pred             hccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCe
Confidence            4667766666654433311            1124678899999999999999999976544

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.

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=93.60  E-value=0.068  Score=53.91  Aligned_cols=116  Identities=11%  Similarity=-0.038  Sum_probs=57.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH-HhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC----hhHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN-QFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK----IPQY  278 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~-~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~----~~~~  278 (709)
                      ..+++.|.|+.|.||||+.+.+.- .+..+-...+|-....   -      ....+++..++..+.-.....    -...
T Consensus        30 ~g~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~---~------~~~~~i~~~~~~~d~~~~~~StF~~e~~~  100 (222)
T cd03287          30 GGYCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSAT---L------SIFDSVLTRMGASDSIQHGMSTFMVELSE  100 (222)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceE---E------eccceEEEEecCccccccccchHHHHHHH
Confidence            457889999999999999998876 3333322222221100   0      011111122211111111111    1222


Q ss_pred             HHHHHc--cCceEEEecCCCC----hh--h-hhhhhcCCCCCCCCeEEEEEcCchhhhhh
Q 005191          279 IRDRLQ--RMKVFIVLDDVNK----YG--Q-LEYFDGGLDRFGPGSRIIVTTRDKTILER  329 (709)
Q Consensus       279 l~~~L~--~kr~LLVLDdv~~----~~--~-~~~l~~~l~~~~~gsrIIvTTR~~~v~~~  329 (709)
                      +...+.  .++-|++||....    .+  . ...+...+.. ..++.+|++|....+...
T Consensus       101 ~~~il~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~-~~~~~~i~~TH~~~l~~~  159 (222)
T cd03287         101 TSHILSNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLE-EKKCLVLFVTHYPSLGEI  159 (222)
T ss_pred             HHHHHHhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHh-ccCCeEEEEcccHHHHHH
Confidence            333333  4789999999731    11  1 1223333322 147889999999876543

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

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=93.57  E-value=0.2  Score=57.45  Aligned_cols=50  Identities=18%  Similarity=0.040  Sum_probs=38.5

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .....++|....+.++.+.+..-......|.|+|..|+||+.+|+.+...
T Consensus       201 ~~f~~~ig~s~~~~~~~~~~~~~A~~~~pvlI~GE~GtGK~~lA~aiH~~  250 (520)
T PRK10820        201 SAFSQIVAVSPKMRQVVEQARKLAMLDAPLLITGDTGTGKDLLAYACHLR  250 (520)
T ss_pred             ccccceeECCHHHHHHHHHHHHHhCCCCCEEEECCCCccHHHHHHHHHHh
Confidence            44568999999888888777542223445889999999999999996553

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.56  E-value=0.071  Score=60.50  Aligned_cols=57  Identities=33%  Similarity=0.420  Sum_probs=41.6

Q ss_pred             CCccccchhhhHHHhhhhc---cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          182 DGLIGLESHVEQVRSLLAI---GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+.--.+-++++..||..   +....+++.|+|++|+||||.++.+++.+  .|+..-|..
T Consensus        19 ~eLavhkkKv~eV~~wl~~~~~~~~~~~iLlLtGP~G~GKtttv~~La~el--g~~v~Ew~n   78 (519)
T PF03215_consen   19 DELAVHKKKVEEVRSWLEEMFSGSSPKRILLLTGPSGCGKTTTVKVLAKEL--GFEVQEWIN   78 (519)
T ss_pred             HHhhccHHHHHHHHHHHHHHhccCCCcceEEEECCCCCCHHHHHHHHHHHh--CCeeEEecC
Confidence            3445555678888888874   22346799999999999999999999875  344455543

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=93.56  E-value=0.048  Score=50.62  Aligned_cols=26  Identities=27%  Similarity=0.570  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .++|+|++|+|||||++.+.+.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            36899999999999999998865433

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.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=93.54  E-value=0.048  Score=55.02  Aligned_cols=25  Identities=36%  Similarity=0.526  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +|+|.|.+|+||||||+.+...+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~   25 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSR   25 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhh
Confidence            4899999999999999999987753

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=93.53  E-value=0.038  Score=54.13  Aligned_cols=21  Identities=33%  Similarity=0.040  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ++.|+|+.|.||||+.+.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            467999999999999999884

>PRK04328 hypothetical protein; Provisional

Probab=93.52  E-value=0.13  Score=53.05  Aligned_cols=48  Identities=23%  Similarity=0.235  Sum_probs=35.7

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|-++|..+-+...++.|.|.+|.|||+||.++......+-..++|+.
T Consensus        11 ~LD~lL~GGip~gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         11 GMDEILYGGIPERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             hHHHHhcCCCcCCcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            344555544456789999999999999999998876545555667776

>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=93.48  E-value=0.059  Score=50.65  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=20.3

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|+|++|.||||+|+.++..+
T Consensus         2 i~l~G~~GsGKstla~~la~~l   23 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKAL   23 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998875

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.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=93.44  E-value=0.64  Score=46.20  Aligned_cols=25  Identities=32%  Similarity=0.446  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|..|.|||||++.++..
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl   57 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRF   57 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4578999999999999999998753

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=93.43  E-value=0.029  Score=40.98  Aligned_cols=29  Identities=10%  Similarity=0.027  Sum_probs=25.7

Q ss_pred             ccccCCCcCccCCccCCccccccccccceee
Q 005191          575 DFFIIPYQLVIGKGGGNKTNDFRAAAADVIQ  605 (709)
Q Consensus       575 ~i~~LP~~~~Ig~L~~LetLDlr~T~v~~~~  605 (709)
                      .|+.||.  +|++|.+|++||++++.+..+|
T Consensus        12 ~i~~l~~--~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen   12 QITDLPP--ELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             S-SSHGG--HGTTCTTSSEEEETSSCCSBEG
T ss_pred             CCcccCc--hHhCCCCCCEEEecCCCCCCCc
Confidence            5778999  9999999999999999998775

...

>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=93.41  E-value=0.1  Score=55.74  Aligned_cols=57  Identities=26%  Similarity=0.317  Sum_probs=38.7

Q ss_pred             CCCCccccchhhhH---HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccce
Q 005191          180 DSDGLIGLESHVEQ---VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGK  236 (709)
Q Consensus       180 ~~~~~vGR~~el~~---L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~  236 (709)
                      ....+||..+..+.   +.++...+.=..+.+.|.|++|.|||+||..+++.+....+..
T Consensus        22 ~~~GlVGQ~~AReAagiiv~mIk~~K~aGr~iLiaGppGtGKTAlA~~ia~eLG~~~PF~   81 (398)
T PF06068_consen   22 IADGLVGQEKAREAAGIIVDMIKEGKIAGRAILIAGPPGTGKTALAMAIAKELGEDVPFV   81 (398)
T ss_dssp             EETTEES-HHHHHHHHHHHHHHHTT--TT-EEEEEE-TTSSHHHHHHHHHHHCTTTS-EE
T ss_pred             ccccccChHHHHHHHHHHHHHHhcccccCcEEEEeCCCCCCchHHHHHHHHHhCCCCCee
Confidence            45789998766554   3444444433468999999999999999999999988765543

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.

>cd01858 NGP_1 NGP-1

Probab=93.40  E-value=0.45  Score=45.00  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...++++|++|+|||||...+..+
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~  125 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSK  125 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcC
Confidence            456789999999999999998753

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=93.39  E-value=0.094  Score=53.28  Aligned_cols=47  Identities=21%  Similarity=0.231  Sum_probs=32.0

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +...+..+-+...++.|.|++|+||||||.+++.....+-...+|+.
T Consensus        13 ld~~l~ggi~~g~~~~i~G~~G~GKTtl~~~~~~~~~~~g~~~~yi~   59 (230)
T PRK08533         13 LHKRLGGGIPAGSLILIEGDESTGKSILSQRLAYGFLQNGYSVSYVS   59 (230)
T ss_pred             eehhhCCCCCCCcEEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEe
Confidence            33344333345679999999999999999888776544334555655

>COG4618 ArpD ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]

Probab=93.37  E-value=0.1  Score=57.42  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...++|.|++|.||||||+.+.-
T Consensus       362 G~~lgIIGPSgSGKSTLaR~lvG  384 (580)
T COG4618         362 GEALGIIGPSGSGKSTLARLLVG  384 (580)
T ss_pred             CceEEEECCCCccHHHHHHHHHc
Confidence            46899999999999999998853

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.36  E-value=0.089  Score=50.74  Aligned_cols=29  Identities=24%  Similarity=0.366  Sum_probs=25.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+++|+|..|+|||||++.+...+..+
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~l~~~   33 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPALCAR   33 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHHHhhc
Confidence            46799999999999999999999887653

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

Probab=93.36  E-value=0.11  Score=56.65  Aligned_cols=50  Identities=22%  Similarity=0.175  Sum_probs=36.3

Q ss_pred             CccccchhhhHHHhhhhc---------c---CCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          183 GLIGLESHVEQVRSLLAI---------G---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~---------~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .++|.+...+.+..++..         +   ......+.+.|++|+|||+||+.++..+...
T Consensus        16 ~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~   77 (443)
T PRK05201         16 YIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAP   77 (443)
T ss_pred             ccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCCh
Confidence            577777777777665532         0   0114678999999999999999999876443

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=93.35  E-value=0.071  Score=52.73  Aligned_cols=25  Identities=32%  Similarity=0.469  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++.|.|.+|+||||+|+.++.++
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~~   27 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARHR   27 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999999874

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=93.34  E-value=0.11  Score=48.47  Aligned_cols=35  Identities=20%  Similarity=0.322  Sum_probs=26.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEe
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~  240 (709)
                      ++|.|+|..|+|||||++.+.+.+..+ +...++..
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~   36 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKH   36 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEE
Confidence            478999999999999999999988754 55444544

>PRK13948 shikimate kinase; Provisional

Probab=93.28  E-value=0.072  Score=51.96  Aligned_cols=27  Identities=26%  Similarity=0.310  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+.|.+.|+.|+||||+++.+++++.
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~~lg   35 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSRALM   35 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHcC
Confidence            457899999999999999999998763

>PRK13949 shikimate kinase; Provisional

Probab=93.27  E-value=0.065  Score=51.67  Aligned_cols=24  Identities=25%  Similarity=0.357  Sum_probs=21.6

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      -|.|.|++|.||||+++.+++.+.
T Consensus         3 ~I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999998764

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=93.25  E-value=0.12  Score=60.05  Aligned_cols=77  Identities=19%  Similarity=0.163  Sum_probs=54.2

Q ss_pred             CCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      ++..-+.++|.+..++.|...+...    +.+.++|++|+||||+|+.+++.+.. .++...|..+..      .....+
T Consensus        26 ~~~~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~np~------~~~~~~   95 (637)
T PRK13765         26 PERLIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPNPE------DPNNPK   95 (637)
T ss_pred             CcccHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeCCC------cchHHH
Confidence            3444567899988888888777633    47889999999999999999987643 346777776422      334455


Q ss_pred             HHHHHHHh
Q 005191          256 RNQVLSKL  263 (709)
Q Consensus       256 ~~~ll~~l  263 (709)
                      .+.+....
T Consensus        96 ~~~v~~~~  103 (637)
T PRK13765         96 IRTVPAGK  103 (637)
T ss_pred             HHHHHHhc
Confidence            55555443

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

Probab=93.24  E-value=0.98  Score=45.66  Aligned_cols=52  Identities=23%  Similarity=0.409  Sum_probs=35.4

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      +.+=|.++.+++|.+.+--           +-..+.-+..+|++|.|||-+|++.+.+....|
T Consensus       171 sDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTF  233 (424)
T KOG0652|consen  171 SDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATF  233 (424)
T ss_pred             cccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchH
Confidence            3455666777766665421           112356788999999999999999887654433

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

Probab=93.20  E-value=0.083  Score=56.78  Aligned_cols=48  Identities=27%  Similarity=0.306  Sum_probs=38.1

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ..++|+++.+..+...+..+    +.+.+.|++|+|||+||+.++..+...|
T Consensus        24 ~~~~g~~~~~~~~l~a~~~~----~~vll~G~PG~gKT~la~~lA~~l~~~~   71 (329)
T COG0714          24 KVVVGDEEVIELALLALLAG----GHVLLEGPPGVGKTLLARALARALGLPF   71 (329)
T ss_pred             CeeeccHHHHHHHHHHHHcC----CCEEEECCCCccHHHHHHHHHHHhCCCe
Confidence            34889888888777666633    5678999999999999999999876443

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=93.20  E-value=0.12  Score=54.72  Aligned_cols=48  Identities=17%  Similarity=0.135  Sum_probs=34.5

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+.++=..+....+...+..    .+.|.|.|++|+||||+|+.++..+...
T Consensus        44 d~~y~f~~~~~~~vl~~l~~----~~~ilL~G~pGtGKTtla~~lA~~l~~~   91 (327)
T TIGR01650        44 DPAYLFDKATTKAICAGFAY----DRRVMVQGYHGTGKSTHIEQIAARLNWP   91 (327)
T ss_pred             CCCccCCHHHHHHHHHHHhc----CCcEEEEeCCCChHHHHHHHHHHHHCCC
Confidence            33444444455666666653    2468999999999999999999987543

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=93.19  E-value=0.068  Score=51.96  Aligned_cols=23  Identities=30%  Similarity=0.410  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|.|.|++|.||||+|+.+++++
T Consensus         2 riiilG~pGaGK~T~A~~La~~~   24 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKKL   24 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            46799999999999999999973

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=93.18  E-value=0.086  Score=54.23  Aligned_cols=26  Identities=31%  Similarity=0.555  Sum_probs=22.5

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +|.++|++|+||||+|+.++..+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            37899999999999999999887543

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.

>PHA02244 ATPase-like protein

Probab=93.18  E-value=0.081  Score=56.87  Aligned_cols=50  Identities=18%  Similarity=0.074  Sum_probs=32.1

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...++|....+......+..--....-|.|+|++|+|||+||+++++...
T Consensus        95 d~~~ig~sp~~~~~~~ri~r~l~~~~PVLL~GppGtGKTtLA~aLA~~lg  144 (383)
T PHA02244         95 DTTKIASNPTFHYETADIAKIVNANIPVFLKGGAGSGKNHIAEQIAEALD  144 (383)
T ss_pred             CCcccCCCHHHHHHHHHHHHHHhcCCCEEEECCCCCCHHHHHHHHHHHhC
Confidence            45577766655433332221111223577899999999999999998753

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.17  E-value=0.16  Score=58.35  Aligned_cols=52  Identities=15%  Similarity=0.080  Sum_probs=31.9

Q ss_pred             hhHHHHHHHccCceEEEecCCCC------hhhhhhhhcCCCCCCCCeEEEEEcCchhhhh
Q 005191          275 IPQYIRDRLQRMKVFIVLDDVNK------YGQLEYFDGGLDRFGPGSRIIVTTRDKTILE  328 (709)
Q Consensus       275 ~~~~l~~~L~~kr~LLVLDdv~~------~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~  328 (709)
                      ..-.+.+.|-++|.+||||++-+      ...++.-+..+.  ...+.|+|+-|-..+-.
T Consensus       611 QRIAIARALlr~P~VLILDEATSALDaeSE~lVq~aL~~~~--~~rTVlvIAHRLSTV~~  668 (716)
T KOG0058|consen  611 QRIAIARALLRNPRVLILDEATSALDAESEYLVQEALDRLM--QGRTVLVIAHRLSTVRH  668 (716)
T ss_pred             HHHHHHHHHhcCCCEEEEechhhhcchhhHHHHHHHHHHhh--cCCeEEEEehhhhHhhh
Confidence            34456777888999999999832      222333332222  23677788888665443

>COG3910 Predicted ATPase [General function prediction only]

Probab=93.15  E-value=0.63  Score=45.01  Aligned_cols=24  Identities=25%  Similarity=0.307  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..++-.|+|..|+|||||...++-
T Consensus        36 ~apIT~i~GENGsGKSTLLEaiA~   59 (233)
T COG3910          36 RAPITFITGENGSGKSTLLEAIAA   59 (233)
T ss_pred             cCceEEEEcCCCccHHHHHHHHHh
Confidence            357889999999999999999875

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.14  E-value=0.068  Score=50.83  Aligned_cols=20  Identities=40%  Similarity=0.665  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchhHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~  226 (709)
                      .|+|+|.||+||||++..+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999887

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=93.14  E-value=0.47  Score=46.42  Aligned_cols=27  Identities=33%  Similarity=0.257  Sum_probs=23.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..++.|.|++|+|||+++.+++..+..
T Consensus        32 g~l~~i~g~~g~GKT~~~~~l~~~~~~   58 (193)
T PF13481_consen   32 GELTLIAGPPGSGKTTLALQLAAALAT   58 (193)
T ss_dssp             TSEEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            358889999999999999999887654

>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed

Probab=93.13  E-value=0.1  Score=62.46  Aligned_cols=110  Identities=16%  Similarity=0.081  Sum_probs=56.4

Q ss_pred             cCceEEEecCCCC---hhhh----hhhhcCCCCCCCCeEEEEEcCchhhhhhcCcc-e--EEEecCCChHHHHHHhhhcc
Q 005191          285 RMKVFIVLDDVNK---YGQL----EYFDGGLDRFGPGSRIIVTTRDKTILERYGTH-R--IYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       285 ~kr~LLVLDdv~~---~~~~----~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~-~--~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ..+-|+++|....   ...-    ..++..+.  ..|+.+|+||....+....... .  ...+. ++ .+..... ...
T Consensus       406 ~~~sLvLlDE~~~GtDp~eg~ala~aile~l~--~~~~~vIitTH~~el~~~~~~~~~v~~~~~~-~d-~~~l~~~-Ykl  480 (782)
T PRK00409        406 DKNSLVLFDELGAGTDPDEGAALAISILEYLR--KRGAKIIATTHYKELKALMYNREGVENASVE-FD-EETLRPT-YRL  480 (782)
T ss_pred             CcCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--HCCCEEEEECChHHHHHHHhcCCCeEEEEEE-Ee-cCcCcEE-EEE
Confidence            4678999999842   2222    22222222  2477899999988765533211 1  11111 11 1111111 111


Q ss_pred             cccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHHh
Q 005191          355 FKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNL  404 (709)
Q Consensus       355 ~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~L  404 (709)
                       ....+.   ...+-.|++++ |+|-.+..-|..+......+....+++|
T Consensus       481 -~~G~~g---~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~l  525 (782)
T PRK00409        481 -LIGIPG---KSNAFEIAKRL-GLPENIIEEAKKLIGEDKEKLNELIASL  525 (782)
T ss_pred             -eeCCCC---CcHHHHHHHHh-CcCHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence             111122   12356676665 8888888888777665555555555554

>PRK05537 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Validated

Probab=93.12  E-value=0.11  Score=59.90  Aligned_cols=51  Identities=20%  Similarity=0.198  Sum_probs=39.6

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ++..+.|.+-.+.|.+..........+|.|+|++|+||||+|+.++.++..
T Consensus       368 pP~~f~rpeV~~iL~~~~~~r~~~g~~Ivl~Gl~GSGKSTia~~La~~L~~  418 (568)
T PRK05537        368 IPEWFSFPEVVAELRRTYPPRHKQGFTVFFTGLSGAGKSTIAKALMVKLME  418 (568)
T ss_pred             CChhhcHHHHHHHHHHHhccccCCCeEEEEECCCCChHHHHHHHHHHHhhh
Confidence            345666766667777766655556679999999999999999999998754

>PRK15453 phosphoribulokinase; Provisional

Probab=93.11  E-value=0.13  Score=53.33  Aligned_cols=28  Identities=21%  Similarity=0.381  Sum_probs=24.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+|+|.|.+|+||||+|+.+.+.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~if~~   31 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEKIFRR   31 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            5679999999999999999999876643

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=93.11  E-value=0.058  Score=51.43  Aligned_cols=22  Identities=32%  Similarity=0.561  Sum_probs=19.8

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.|.|++|+||||+|+.+.+.+
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            4689999999999999999875

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.10  E-value=0.29  Score=54.42  Aligned_cols=36  Identities=19%  Similarity=0.264  Sum_probs=26.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh--hcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS--QKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~--~~f~~~~~v~  240 (709)
                      .+++.++|++|+||||++..++..+.  ..-..+.++.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~  258 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT  258 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            46899999999999999999988765  2223344444

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=93.08  E-value=0.16  Score=53.68  Aligned_cols=88  Identities=16%  Similarity=0.219  Sum_probs=52.8

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc--cceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF--EGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..+.|+|..|.||||++..+...+....  ...+-+.+..+......+.        -.+..   ........+.++..|
T Consensus       133 ~~ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~--------v~~~~---~~~~~~~~~~l~~aL  201 (299)
T TIGR02782       133 KNILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNV--------VQLRT---SDDAISMTRLLKATL  201 (299)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCE--------EEEEe---cCCCCCHHHHHHHHh
Confidence            5678999999999999999998775532  2222232221111000000        00000   001113667888889


Q ss_pred             ccCceEEEecCCCChhhhhhh
Q 005191          284 QRMKVFIVLDDVNKYGQLEYF  304 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~~~~~~l  304 (709)
                      +..+=.||+..+.+.+.++.+
T Consensus       202 R~~pD~iivGEiR~~ea~~~l  222 (299)
T TIGR02782       202 RLRPDRIIVGEVRGGEALDLL  222 (299)
T ss_pred             cCCCCEEEEeccCCHHHHHHH
Confidence            999999999999887766544

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.

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=93.08  E-value=0.67  Score=45.94  Aligned_cols=26  Identities=27%  Similarity=0.455  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|.|||||++.++...
T Consensus        30 ~G~~~~i~G~nG~GKSTLl~~i~G~~   55 (204)
T cd03250          30 KGELVAIVGPVGSGKSSLLSALLGEL   55 (204)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcC
Confidence            45799999999999999999988743

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=93.07  E-value=0.33  Score=51.56  Aligned_cols=48  Identities=29%  Similarity=0.305  Sum_probs=35.5

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|...|. .+-+..+++-|+|+.|+||||||..+....+..-...+|+.
T Consensus        40 ~LD~aLg~GG~p~G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID   88 (322)
T PF00154_consen   40 ALDYALGIGGLPRGRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFID   88 (322)
T ss_dssp             HHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEE
T ss_pred             ccchhhccCccccCceEEEeCCCCCchhhhHHHHHHhhhcccceeEEec
Confidence            3444454 23345789999999999999999999988766656677776

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>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=93.02  E-value=0.11  Score=49.30  Aligned_cols=35  Identities=20%  Similarity=0.519  Sum_probs=28.9

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..+++|.+.|.    + +++++.|.+|+|||||...+...
T Consensus        24 ~g~~~l~~~l~----~-k~~vl~G~SGvGKSSLiN~L~~~   58 (161)
T PF03193_consen   24 EGIEELKELLK----G-KTSVLLGQSGVGKSSLINALLPE   58 (161)
T ss_dssp             TTHHHHHHHHT----T-SEEEEECSTTSSHHHHHHHHHTS
T ss_pred             cCHHHHHHHhc----C-CEEEEECCCCCCHHHHHHHHHhh
Confidence            45677777776    3 78999999999999999988764

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.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=93.02  E-value=0.14  Score=51.08  Aligned_cols=34  Identities=32%  Similarity=0.489  Sum_probs=25.9

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|+|+|-||+||||+|..++.++.++-...+.+.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~VLvV   35 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYNVLVV   35 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCceEEEE
Confidence            5899999999999999997777665543344444

>PRK13975 thymidylate kinase; Provisional

Probab=92.99  E-value=0.084  Score=51.97  Aligned_cols=26  Identities=27%  Similarity=0.460  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..|+|.|+.|+||||+|+.+++++..
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhCC
Confidence            57999999999999999999998754

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=92.99  E-value=0.33  Score=52.61  Aligned_cols=179  Identities=18%  Similarity=0.250  Sum_probs=90.7

Q ss_pred             HHHHHHHHHhCCCceEE---cC------CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHHHHHHhh-hhCC
Q 005191           22 LSHLVVALQEKKIKTFI---DE------ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCH-KKNI   91 (709)
Q Consensus        22 ~~~L~~~L~~~g~~~~~---d~------~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~~~~~~~-~~~~   91 (709)
                      .+.|..-.+..|+.|.-   ..      ..--|.--.++|.+.+++....+|||-..-..|  -...|..++.+. -.+.
T Consensus        19 ~~E~~~L~~~~~~~v~~~~~~~~~~~~~~~~~g~gk~~e~~~~~~~~~~~~vi~~~~l~p~--q~~nl~~~~~~~v~Dr~   96 (351)
T TIGR03156        19 LEELAELAETAGAEVVGTVTQKRSRPDPATYIGKGKVEEIAELVEELEADLVIFDHELSPS--QERNLEKALGCRVIDRT   96 (351)
T ss_pred             HHHHHHHHHHCCCEEEEEEEEecCCCCCCeEecccHHHHHHHHHHhcCCCEEEECCCCCHH--HHHHHHHHhCCcccchH
Confidence            55566566677887643   11      112244446788888888899888887554333  345566655443 1122


Q ss_pred             ceeEeEEeecCCCcccccCCchhhhhhhhhhhhccchhHHHHHHHHHHHhhhccCCCCCCCCcchhhhHHHHHHHHHhhh
Q 005191           92 QLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKL  171 (709)
Q Consensus        92 ~~vlPvf~~v~p~~vr~~~g~~~~~~~~~~~~~~~~~~~~v~~w~~aL~~v~~~~g~~~~~~~~e~~~i~~i~~~i~~~l  171 (709)
                      ..|+-||-.        ..++....+.---......++..+..|+. |.....-.|+..+  + |.. ++.-...+.+++
T Consensus        97 ~lil~iF~~--------ra~t~e~klqv~la~l~~~l~r~~~~~~~-l~~~~~~i~~~g~--g-E~~-~~~~~~~i~~ri  163 (351)
T TIGR03156        97 GLILDIFAQ--------RARTHEGKLQVELAQLKYLLPRLVGGWTH-LSRQGGGIGTRGP--G-ETQ-LETDRRLIRERI  163 (351)
T ss_pred             HHHHHHHHH--------hccChHHHHHHHHHhccchhhhhhhhHHH-HHhhcCCCCCCCC--C-hhH-HHHHHHHHHHHH
Confidence            344555422        11122222222223333333456677877 6655544444322  1 111 111112222222


Q ss_pred             hcccCCCCCCCCccccchhhhHHHhhhhc-----cCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          172 EKLSAAISDSDGLIGLESHVEQVRSLLAI-----GLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       172 ~~~~~~~~~~~~~vGR~~el~~L~~~L~~-----~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..             ...+++++.+.-..     ...+...|+|+|.+++|||||...+...
T Consensus       164 ~~-------------l~~~L~~~~~~~~~~r~~r~~~~~~~ValvG~~NvGKSSLln~L~~~  212 (351)
T TIGR03156       164 AQ-------------LKKELEKVEKQRERQRRRRKRADVPTVALVGYTNAGKSTLFNALTGA  212 (351)
T ss_pred             HH-------------HHHHHHHHHHHHHHHHhhhcccCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            22             11223333222111     1134578999999999999999998864

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>TIGR03263 guanyl_kin guanylate kinase

Probab=92.99  E-value=0.068  Score=51.84  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++++|.|++|+|||||++.++...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHccC
Confidence            578999999999999999998854

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.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=92.98  E-value=0.44  Score=53.02  Aligned_cols=91  Identities=15%  Similarity=0.236  Sum_probs=52.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCC-CC---CCCCCCh----
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGE-NF---DIGTPKI----  275 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~-~~---~~~~~~~----  275 (709)
                      ..+.++|.|.+|+|||||+..++.....+.+..+.+..+++..   ....++.+.+...-... ..   ...+...    
T Consensus       143 kGQR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGER~---rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~  219 (463)
T PRK09280        143 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERT---REGNDLYHEMKESGVLDKTALVFGQMNEPPGARL  219 (463)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCc---HHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            3578899999999999999999887665544444444444332   33445555554421110 00   0111111    


Q ss_pred             -----hHHHHHHH---ccCceEEEecCCCC
Q 005191          276 -----PQYIRDRL---QRMKVFIVLDDVNK  297 (709)
Q Consensus       276 -----~~~l~~~L---~~kr~LLVLDdv~~  297 (709)
                           .-.+.+++   +++++||++|++-.
T Consensus       220 ~a~~~a~tiAEyfrd~~G~~VLll~DslTR  249 (463)
T PRK09280        220 RVALTGLTMAEYFRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEecchHH
Confidence                 11234444   56899999999943

>PRK14530 adenylate kinase; Provisional

Probab=92.97  E-value=0.078  Score=53.22  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|.|.|++|+||||+|+.+++.+
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998875

>PRK00300 gmk guanylate kinase; Provisional

Probab=92.96  E-value=0.08  Score=52.56  Aligned_cols=26  Identities=23%  Similarity=0.326  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|+|++|+|||||++.++...
T Consensus         4 ~g~~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          4 RGLLIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            35789999999999999999998864

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=92.92  E-value=0.32  Score=54.21  Aligned_cols=90  Identities=19%  Similarity=0.235  Sum_probs=51.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCC-CC---CCCCCCh----
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGE-NF---DIGTPKI----  275 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~-~~---~~~~~~~----  275 (709)
                      ..+.++|.|.+|+|||+|+..+++....+....+.+..+++..   ....++...+...-... ..   ...+...    
T Consensus       142 kGQR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGER~---rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~  218 (461)
T PRK12597        142 KGGKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGERS---REGHELYHEMKESGVLDKTVMVYGQMNEPPGARM  218 (461)
T ss_pred             cCCEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCcch---HHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHH
Confidence            4578999999999999999999987764433333333343332   33444555444321100 00   1111111    


Q ss_pred             -----hHHHHHHH---ccCceEEEecCCC
Q 005191          276 -----PQYIRDRL---QRMKVFIVLDDVN  296 (709)
Q Consensus       276 -----~~~l~~~L---~~kr~LLVLDdv~  296 (709)
                           .-.+.+++   .++++||++||+-
T Consensus       219 ~a~~~a~tiAEyfrd~~G~~VLl~~DslT  247 (461)
T PRK12597        219 RVVLTGLTIAEYLRDEEKEDVLLFIDNIF  247 (461)
T ss_pred             HHHHHHHHHHHHHHHhcCCceEEEeccch
Confidence                 11233444   3789999999994

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=92.92  E-value=0.12  Score=59.99  Aligned_cols=58  Identities=26%  Similarity=0.341  Sum_probs=43.4

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeee
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANV  242 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~  242 (709)
                      .+.++|.++.++.+...+...    +.+.++|++|+||||+|+.+++.+... |...+++.+.
T Consensus        17 ~~~viG~~~a~~~l~~a~~~~----~~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~n~   75 (608)
T TIGR00764        17 IDQVIGQEEAVEIIKKAAKQK----RNVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYPNP   75 (608)
T ss_pred             HhhccCHHHHHHHHHHHHHcC----CCEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEeCC
Confidence            456889998888888777633    356699999999999999999987554 3444555533

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

>PF13245 AAA_19: Part of AAA domain

Probab=92.91  E-value=0.15  Score=42.11  Aligned_cols=24  Identities=29%  Similarity=0.306  Sum_probs=18.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+++.|.|++|.|||+++......
T Consensus        10 ~~~~vv~g~pGtGKT~~~~~~i~~   33 (76)
T PF13245_consen   10 SPLFVVQGPPGTGKTTTLAARIAE   33 (76)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            467888999999999666555544

>PRK14737 gmk guanylate kinase; Provisional

Probab=92.89  E-value=0.085  Score=51.71  Aligned_cols=26  Identities=27%  Similarity=0.369  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.+++.|+|++|+|||||++.+..+.
T Consensus         3 ~~~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          3 SPKLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhcC
Confidence            46789999999999999999998764

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

Probab=92.89  E-value=0.25  Score=55.86  Aligned_cols=47  Identities=21%  Similarity=0.229  Sum_probs=38.6

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..++|+...+..+.+.+..-......+.|+|.+|+|||++|+.+.+.
T Consensus       138 ~~lig~s~~~~~l~~~~~~~~~~~~~vli~Ge~GtGK~~lA~~ih~~  184 (469)
T PRK10923        138 TDIIGEAPAMQDVFRIIGRLSRSSISVLINGESGTGKELVAHALHRH  184 (469)
T ss_pred             ccceecCHHHHHHHHHHHHHhccCCeEEEEeCCCCcHHHHHHHHHhc
Confidence            46999999998888877654445567889999999999999988775

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=92.88  E-value=0.43  Score=51.34  Aligned_cols=37  Identities=19%  Similarity=0.293  Sum_probs=28.4

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..|.++|..+-....++-|+|.+|+|||+|+..++-.
T Consensus       110 ~~LD~lL~GG~~~g~i~~i~G~~g~GKT~l~~~l~~~  146 (342)
T PLN03186        110 RELDKILEGGIETGSITEIYGEFRTGKTQLCHTLCVT  146 (342)
T ss_pred             HHHHHhhcCCCcCceEEEEECCCCCCccHHHHHHHHH
Confidence            4455555544455789999999999999999988754

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=92.88  E-value=0.18  Score=53.70  Aligned_cols=36  Identities=31%  Similarity=0.430  Sum_probs=28.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .+++...|.||+||||+|.+.+-...........++
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvS   37 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVS   37 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEE
Confidence            478999999999999999998888777664444443

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=92.88  E-value=0.11  Score=50.23  Aligned_cols=25  Identities=24%  Similarity=0.386  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++.|.|++|+|||||++.+..+.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc
Confidence            4688999999999999999999875

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

Probab=92.86  E-value=0.17  Score=53.40  Aligned_cols=56  Identities=27%  Similarity=0.310  Sum_probs=41.9

Q ss_pred             CCCCCccccchhhhH---HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhccc
Q 005191          179 SDSDGLIGLESHVEQ---VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE  234 (709)
Q Consensus       179 ~~~~~~vGR~~el~~---L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  234 (709)
                      ...+.|||-.+..+.   +.++..++.-..+.|.|.|++|.|||+||..+++.+-..-+
T Consensus        36 ~~~dG~VGQ~~AReAaGvIv~mik~gk~aGrgiLi~GppgTGKTAlA~gIa~eLG~dvP   94 (450)
T COG1224          36 FIGDGLVGQEEAREAAGVIVKMIKQGKMAGRGILIVGPPGTGKTALAMGIARELGEDVP   94 (450)
T ss_pred             EcCCcccchHHHHHhhhHHHHHHHhCcccccEEEEECCCCCcHHHHHHHHHHHhCCCCC
Confidence            456789997654443   44555555445789999999999999999999998865533

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=92.84  E-value=0.26  Score=57.55  Aligned_cols=25  Identities=28%  Similarity=0.353  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|.+|.|||||++.+...
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~gl  384 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQRV  384 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3578999999999999999988753

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=92.82  E-value=0.43  Score=51.69  Aligned_cols=36  Identities=22%  Similarity=0.369  Sum_probs=24.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh--hcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS--QKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~--~~f~~~~~v~  240 (709)
                      .+++.++|+.|+||||-...++.++.  ..-..+.++.
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT  240 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT  240 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE
Confidence            79999999999999955444544433  3334445554

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=92.81  E-value=0.08  Score=52.58  Aligned_cols=22  Identities=32%  Similarity=0.123  Sum_probs=20.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .+++|+|+.|.|||||.+.++.
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            7999999999999999999984

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK13946 shikimate kinase; Provisional

Probab=92.81  E-value=0.083  Score=51.65  Aligned_cols=25  Identities=28%  Similarity=0.389  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.|.+.|++|+||||+++.+++++
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~L   34 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATML   34 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHc
Confidence            4579999999999999999999986

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=92.79  E-value=0.14  Score=51.15  Aligned_cols=29  Identities=17%  Similarity=0.323  Sum_probs=25.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .++++++++|..|+|||||..++.+....
T Consensus        20 ~~~~~i~~~G~~gsGKTTli~~l~~~~~~   48 (207)
T TIGR00073        20 HGLVVLNFMSSPGSGKTTLIEKLIDNLKD   48 (207)
T ss_pred             cCcEEEEEECCCCCCHHHHHHHHHHHHhc
Confidence            47999999999999999999999887543

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=92.79  E-value=2.6  Score=44.23  Aligned_cols=126  Identities=8%  Similarity=0.015  Sum_probs=68.9

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-------------ccceEEEeeecccccccCCHHHHHHH
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-------------FEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-------------f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      +.|...+..+ .-.+...++|+.|+||+++|..++..+-..             .+...++......  ....+      
T Consensus         7 ~~L~~~i~~~-rl~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~~~~~HPD~~~i~p~~~~--~~I~i------   77 (290)
T PRK05917          7 EALIQRVRDQ-KVPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKISQKIHPDIHEFSPQGKG--RLHSI------   77 (290)
T ss_pred             HHHHHHHHcC-CcCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHHhcCCCCCEEEEecCCCC--CcCcH------
Confidence            3445555432 225788899999999999999999865321             2222222100000  00001      


Q ss_pred             HHHHhcCCCCCCCCCChhHHHHHHHc-----cCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc
Q 005191          259 VLSKLLGENFDIGTPKIPQYIRDRLQ-----RMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY  330 (709)
Q Consensus       259 ll~~l~~~~~~~~~~~~~~~l~~~L~-----~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~  330 (709)
                                     +....+.+.+.     ++.=++|+|+++.  .+....++..+..-.+++.+|++|.+. .+++..
T Consensus        78 ---------------dqiR~l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI  142 (290)
T PRK05917         78 ---------------ETPRAIKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTI  142 (290)
T ss_pred             ---------------HHHHHHHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHH
Confidence                           11222223322     3445889999974  556777777776656677776666664 444332


Q ss_pred             -CcceEEEecCC
Q 005191          331 -GTHRIYEVEGL  341 (709)
Q Consensus       331 -~~~~~~~L~~L  341 (709)
                       +.-..+.+.++
T Consensus       143 ~SRcq~~~~~~~  154 (290)
T PRK05917        143 RSRSLSIHIPME  154 (290)
T ss_pred             HhcceEEEccch
Confidence             22355666665

>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=92.74  E-value=0.11  Score=55.20  Aligned_cols=52  Identities=19%  Similarity=0.337  Sum_probs=43.8

Q ss_pred             CCCccccchhhhHHHhhhhccC----CCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          181 SDGLIGLESHVEQVRSLLAIGL----PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~----~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...|+|.++.++++.+.+....    ..-+++.+.|+.|.||||||..+.+-+.+.
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~~le~y  115 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKRGLEEY  115 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHHHhheE
Confidence            4579999999999999997533    347899999999999999999988866554

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>PF06414 Zeta_toxin: Zeta toxin; InterPro: IPR010488 This entry represents a domain originally identified in bacterial zeta toxin proteins, where it comprises the whole protein []

Probab=92.73  E-value=0.13  Score=50.94  Aligned_cols=99  Identities=15%  Similarity=0.125  Sum_probs=45.8

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC---hhHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK---IPQYI  279 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~---~~~~l  279 (709)
                      ..+.++.|.|.+|.||||++..+...+.  ....+.+. ........+....+..    .-..........+   +...+
T Consensus        13 ~~P~~~i~aG~~GsGKSt~~~~~~~~~~--~~~~v~i~-~D~~r~~~p~~~~~~~----~~~~~~~~~~~~~a~~~~~~~   85 (199)
T PF06414_consen   13 EKPTLIIIAGQPGSGKSTLARQLLEEFG--GGGIVVID-ADEFRQFHPDYDELLK----ADPDEASELTQKEASRLAEKL   85 (199)
T ss_dssp             SS-EEEEEES-TTSTTHHHHHHHHHHT---TT-SEEE--GGGGGGGSTTHHHHHH----HHCCCTHHHHHHHHHHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHHHhhhhcc--CCCeEEEe-hHHHHHhccchhhhhh----hhhhhhHHHHHHHHHHHHHHH
Confidence            4578899999999999999999877653  23334443 3322222122222222    1100000000000   44455


Q ss_pred             HHHHccCceEEEecCCCC-hhhhhhhhcCC
Q 005191          280 RDRLQRMKVFIVLDDVNK-YGQLEYFDGGL  308 (709)
Q Consensus       280 ~~~L~~kr~LLVLDdv~~-~~~~~~l~~~l  308 (709)
                      .+....++.=+|+|..-. .+....+...+
T Consensus        86 ~~~a~~~~~nii~E~tl~~~~~~~~~~~~~  115 (199)
T PF06414_consen   86 IEYAIENRYNIIFEGTLSNPSKLRKLIREA  115 (199)
T ss_dssp             HHHHHHCT--EEEE--TTSSHHHHHHHHHH
T ss_pred             HHHHHHcCCCEEEecCCCChhHHHHHHHHH
Confidence            555566777888898743 34444344333

It has subsequently been found in a number of other proteins, such as polynucleotide kinase and 2',3'-cyclic-nucleotide 3'-phosphodiesterase. It appears to function as a kinase domain [, ].; GO: 0005524 ATP binding, 0016301 kinase activity; PDB: 2P5T_H 1GVN_B 3Q8X_D.

>TIGR00750 lao LAO/AO transport system ATPase

Probab=92.71  E-value=0.21  Score=52.92  Aligned_cols=31  Identities=26%  Similarity=0.381  Sum_probs=26.1

Q ss_pred             CCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          202 LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       202 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .....+++|.|++|+|||||+..+......+
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~~~~~~   61 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGMELRRR   61 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            3457899999999999999999998866543

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PRK12678 transcription termination factor Rho; Provisional

Probab=92.70  E-value=0.21  Score=56.34  Aligned_cols=91  Identities=21%  Similarity=0.251  Sum_probs=49.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC------hh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK------IP  276 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~------~~  276 (709)
                      .....+|+|++|+|||||++.+++.+..+. ++.+++..+.+-...   +..+.+.+-..+-....+.....      ..
T Consensus       415 kGQR~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~ivvLIgERpeE---Vtdm~rsVkgeVVasT~D~p~~~~~~~a~~a  491 (672)
T PRK12678        415 KGQRGLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLVDERPEE---VTDMQRSVKGEVIASTFDRPPSDHTTVAELA  491 (672)
T ss_pred             cCCEeEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEEEeCchhh---HHHHHHhccceEEEECCCCCHHHHHHHHHHH
Confidence            346788999999999999999999775543 344455545443322   33333222111111111111100      11


Q ss_pred             HHHHHHH--ccCceEEEecCCCC
Q 005191          277 QYIRDRL--QRMKVFIVLDDVNK  297 (709)
Q Consensus       277 ~~l~~~L--~~kr~LLVLDdv~~  297 (709)
                      -.+.+++  .++.+||++|++-.
T Consensus       492 i~~Ae~fre~G~dVlillDSlTR  514 (672)
T PRK12678        492 IERAKRLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHHHHHHcCCCEEEEEeCchH
Confidence            1223333  56899999999943

>PRK14527 adenylate kinase; Provisional

Probab=92.66  E-value=0.1  Score=51.35  Aligned_cols=26  Identities=27%  Similarity=0.299  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...++.|.|++|.||||+|+.+++++
T Consensus         5 ~~~~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          5 KNKVVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998764

>TIGR01193 bacteriocin_ABC ABC-type bacteriocin transporter

Probab=92.65  E-value=0.31  Score=58.17  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|.+|.|||||++.+..-
T Consensus       499 ~G~~vaIvG~SGsGKSTLlklL~gl  523 (708)
T TIGR01193       499 MNSKTTIVGMSGSGKSTLAKLLVGF  523 (708)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            3578999999999999999988753

This model describes ABC-type bacteriocin transporter. The amino terminal domain (pfam03412) processes the N-terminal leader peptide from the bacteriocin while C-terminal domains resemble ABC transporter membrane protein and ATP-binding cassette domain. In general, bacteriocins are agents which are responsible for killing or inhibiting the closely related species or even different strains of the same species. Bacteriocins are usually encoded by bacterial plasmids. Bacteriocins are named after the species and hence in literature one encounters various names e.g., leucocin from Leuconostic geldium; pedicocin from Pedicoccus acidilactici; sakacin from Lactobacillus sake etc.

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=92.64  E-value=0.21  Score=50.42  Aligned_cols=47  Identities=23%  Similarity=0.321  Sum_probs=33.6

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      |.+.|..+-+...++.|.|.+|+|||++|.+++.....+-..++|+.
T Consensus         5 LD~~l~gGi~~g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s   51 (224)
T TIGR03880         5 LDEMLGGGFPEGHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYIS   51 (224)
T ss_pred             hHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            44445444445789999999999999999999886544434555554

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

>KOG3928 consensus Mitochondrial ribosome small subunit component, mediator of apoptosis DAP3 [Translation, ribosomal structure and biogenesis]

Probab=92.60  E-value=1.1  Score=48.34  Aligned_cols=54  Identities=17%  Similarity=0.066  Sum_probs=35.2

Q ss_pred             ceEEEecCCChHHHHHHhhhccc----ccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAF----KENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~----~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      ..++++++.+.+|+.++..-+.-    ....+.   ++..+++.-..+|+|--++.+..++
T Consensus       403 f~pi~v~nYt~~E~~~~i~YYl~~nwl~kkv~~---Ee~~kql~fLSngNP~l~~~lca~~  460 (461)
T KOG3928|consen  403 FVPIEVENYTLDEFEALIDYYLQSNWLLKKVPG---EENIKQLYFLSNGNPSLMERLCAFL  460 (461)
T ss_pred             cCccccCCCCHHHHHHHHHHHHHhhHHHhhcCc---ccchhhhhhhcCCCHHHHHHHHHhc
Confidence            35688999999999888654431    111121   3345677777899996666666554

>PRK14493 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoaE; Provisional

Probab=92.60  E-value=0.14  Score=53.40  Aligned_cols=34  Identities=21%  Similarity=0.264  Sum_probs=29.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ++++|+|.+|+|||||+..+...++.+. .+..+.
T Consensus         2 ~~i~i~G~~gSGKTTLi~~Li~~L~~~G-~V~~IK   35 (274)
T PRK14493          2 KVLSIVGYKATGKTTLVERLVDRLSGRG-RVGTVK   35 (274)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhCC-CEEEEE
Confidence            5799999999999999999999988876 455554

>TIGR02533 type_II_gspE general secretory pathway protein E

Probab=92.59  E-value=0.32  Score=54.99  Aligned_cols=89  Identities=12%  Similarity=0.070  Sum_probs=53.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      ..++.|+|+.|.||||+...+.+.+...-...+-+.+.-+..-  .+.        .+...  ...........++..|+
T Consensus       242 ~GlilitGptGSGKTTtL~a~L~~l~~~~~~iiTiEDpvE~~~--~~~--------~q~~v--~~~~g~~f~~~lr~~LR  309 (486)
T TIGR02533       242 HGIILVTGPTGSGKTTTLYAALSRLNTPERNILTVEDPVEYQI--EGI--------GQIQV--NPKIGLTFAAGLRAILR  309 (486)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHhccCCCCCcEEEEcCCeeeec--CCC--------ceEEE--ccccCccHHHHHHHHHh
Confidence            3589999999999999999887776433222333321111100  000        01100  00011236678889999


Q ss_pred             cCceEEEecCCCChhhhhhhh
Q 005191          285 RMKVFIVLDDVNKYGQLEYFD  305 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~~~~~l~  305 (709)
                      ..+=.|++.++.+.+......
T Consensus       310 ~dPDvI~vGEiRd~eta~~a~  330 (486)
T TIGR02533       310 QDPDIIMVGEIRDLETAQIAI  330 (486)
T ss_pred             cCCCEEEEeCCCCHHHHHHHH
Confidence            999999999998887655443

This family describes GspE, the E protein of the type II secretion system, also called the main terminal branch of the general secretion pathway. This model separates GspE from the PilB protein of type IV pilin biosynthesis.

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=92.58  E-value=0.089  Score=48.63  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+-|.|+|-||+|||||+.+++..
T Consensus         7 ~PNILvtGTPG~GKstl~~~lae~   30 (176)
T KOG3347|consen    7 RPNILVTGTPGTGKSTLAERLAEK   30 (176)
T ss_pred             CCCEEEeCCCCCCchhHHHHHHHH
Confidence            345789999999999999999865

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=92.56  E-value=0.31  Score=52.12  Aligned_cols=49  Identities=18%  Similarity=0.254  Sum_probs=34.7

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc------cceEEEe
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF------EGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~v~  240 (709)
                      ..+.++|..+-+...++-|+|++|+|||+|+.+++.......      ...+|+.
T Consensus        89 ~~lD~~l~GGi~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~  143 (317)
T PRK04301         89 KELDELLGGGIETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID  143 (317)
T ss_pred             HHHHHHhcCCccCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence            344455554445678999999999999999999987643221      2566766

>PRK14529 adenylate kinase; Provisional

Probab=92.56  E-value=0.37  Score=48.53  Aligned_cols=91  Identities=19%  Similarity=0.132  Sum_probs=48.4

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccC
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRM  286 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~k  286 (709)
                      |.|.|++|+||||+|+.++.++.-. ....-.+.   +.......+....+.++..    ..-.++.-....+.+.+...
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~is~gdllr---~~i~~~t~lg~~i~~~i~~----G~lvpdei~~~lv~~~l~~~   75 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHIESGAIFR---EHIGGGTELGKKAKEYIDR----GDLVPDDITIPMILETLKQD   75 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCcccchhhh---hhccCCChHHHHHHHHHhc----cCcchHHHHHHHHHHHHhcc
Confidence            7789999999999999998875322 21111111   1111102222223333221    11122222566677776442


Q ss_pred             -ceEEEecCC-CChhhhhhhh
Q 005191          287 -KVFIVLDDV-NKYGQLEYFD  305 (709)
Q Consensus       287 -r~LLVLDdv-~~~~~~~~l~  305 (709)
                       .-=+|||.. .+.+|.+.+.
T Consensus        76 ~~~g~iLDGfPRt~~Qa~~l~   96 (223)
T PRK14529         76 GKNGWLLDGFPRNKVQAEKLW   96 (223)
T ss_pred             CCCcEEEeCCCCCHHHHHHHH
Confidence             345899999 5566665553

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

Probab=92.56  E-value=0.13  Score=51.53  Aligned_cols=51  Identities=29%  Similarity=0.483  Sum_probs=37.2

Q ss_pred             CccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          183 GLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ..=|.+-..+++.+...-           +-+.++-|.++|++|.|||.||+++++.....|
T Consensus       156 diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~t~a~f  217 (408)
T KOG0727|consen  156 DIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANHTTAAF  217 (408)
T ss_pred             ccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhccchhe
Confidence            345666666666665431           224578899999999999999999999765544

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A

Probab=92.54  E-value=0.19  Score=50.36  Aligned_cols=36  Identities=31%  Similarity=0.350  Sum_probs=24.1

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+.+...+..    ..+..|+|++|.|||+++..+...+
T Consensus         6 Q~~Ai~~~~~~----~~~~~i~GpPGTGKT~~l~~~i~~~   41 (236)
T PF13086_consen    6 QREAIQSALSS----NGITLIQGPPGTGKTTTLASIIAQL   41 (236)
T ss_dssp             HHHHHHHHCTS----SE-EEEE-STTSSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC----CCCEEEECCCCCChHHHHHHHHHHh
Confidence            34455555542    2278899999999998888777766

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=92.53  E-value=0.093  Score=50.08  Aligned_cols=21  Identities=29%  Similarity=0.294  Sum_probs=17.7

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |+|+|.+|+|||||+..+...
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            789999999999999999876

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

Probab=92.52  E-value=0.63  Score=53.23  Aligned_cols=177  Identities=18%  Similarity=0.208  Sum_probs=92.2

Q ss_pred             CCCCccccchhhhHHHhhh---hccC-------CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          180 DSDGLIGLESHVEQVRSLL---AIGL-------PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L---~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      .....-|.++..+++.+.+   ....       .=++-+.++|++|.|||.||++++-...-.|     ..    .|.  
T Consensus       148 ~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VPF-----f~----iSG--  216 (596)
T COG0465         148 TFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPF-----FS----ISG--  216 (596)
T ss_pred             ChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCCc-----ee----ccc--
Confidence            4466788887666665544   3221       1267889999999999999999988643332     11    011  


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh----------------hhhhhhhcCCCCCCC
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY----------------GQLEYFDGGLDRFGP  313 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~----------------~~~~~l~~~l~~~~~  313 (709)
                      .+..+       ..    ...+.....+...+..++-++++++|.++..                ..+.+++.....++.
T Consensus       217 S~FVe-------mf----VGvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~  285 (596)
T COG0465         217 SDFVE-------MF----VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGG  285 (596)
T ss_pred             hhhhh-------hh----cCCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCC
Confidence            00011       00    0011111334444555667899999988521                234556655555553


Q ss_pred             --CeEEEEEcCchhhhh-h----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH
Q 005191          314 --GSRIIVTTRDKTILE-R----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       314 --gsrIIvTTR~~~v~~-~----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA  381 (709)
                        |.-|+..|--++++. .    -.-++.+.++..+...-.+.+.-++-.....+.  .+ ...|++.+-|.-.|
T Consensus       286 ~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~l~~~--Vd-l~~iAr~tpGfsGA  357 (596)
T COG0465         286 NEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKPLAED--VD-LKKIARGTPGFSGA  357 (596)
T ss_pred             CCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCCCCCc--CC-HHHHhhhCCCcccc
Confidence              323333333333332 1    123456666666666666666655522221111  11 22377777776543

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=92.52  E-value=0.43  Score=52.94  Aligned_cols=91  Identities=16%  Similarity=0.241  Sum_probs=52.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCC----CCCCCCh----
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENF----DIGTPKI----  275 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~----~~~~~~~----  275 (709)
                      ..+.++|.|.+|+|||+|+..++.....+....+.+..+++..   ....++.+++...-.....    ...+...    
T Consensus       142 ~GQr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER~---rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~  218 (461)
T TIGR01039       142 KGGKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERT---REGNDLYHEMKESGVIDKTALVYGQMNEPPGARM  218 (461)
T ss_pred             cCCEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCCc---hHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHH
Confidence            4578899999999999999999987655444444444444432   3345555555432110000    0111111    


Q ss_pred             -----hHHHHHHH---ccCceEEEecCCCC
Q 005191          276 -----PQYIRDRL---QRMKVFIVLDDVNK  297 (709)
Q Consensus       276 -----~~~l~~~L---~~kr~LLVLDdv~~  297 (709)
                           .-.+.+++   +++++||++||+-.
T Consensus       219 ~a~~~a~tiAEyfrd~~G~~VLll~DslTR  248 (461)
T TIGR01039       219 RVALTGLTMAEYFRDEQGQDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHHHHhcCCeeEEEecchhH
Confidence                 11234445   45899999999943

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=92.47  E-value=0.38  Score=57.30  Aligned_cols=25  Identities=28%  Similarity=0.326  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|..|.|||||++.+..-
T Consensus       490 ~G~~iaIvG~sGsGKSTLlklL~gl  514 (694)
T TIGR03375       490 PGEKVAIIGRIGSGKSTLLKLLLGL  514 (694)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3578999999999999999988753

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>PRK13768 GTPase; Provisional

Probab=92.44  E-value=0.17  Score=52.30  Aligned_cols=27  Identities=26%  Similarity=0.395  Sum_probs=23.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .++.|.|+||+||||++..+...+...
T Consensus         3 ~~i~v~G~~G~GKTt~~~~~~~~l~~~   29 (253)
T PRK13768          3 YIVFFLGTAGSGKTTLTKALSDWLEEQ   29 (253)
T ss_pred             EEEEEECCCCccHHHHHHHHHHHHHhc
Confidence            578899999999999999998876554

>PRK04182 cytidylate kinase; Provisional

Probab=92.43  E-value=0.1  Score=50.33  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|.|++|+||||+|+.++.++
T Consensus         2 ~I~i~G~~GsGKstia~~la~~l   24 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKL   24 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999999875

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=92.42  E-value=0.45  Score=56.78  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|+.|.|||||++.+..-
T Consensus       506 ~Ge~vaIvG~SGsGKSTLl~lL~gl  530 (711)
T TIGR00958       506 PGEVVALVGPSGSGKSTVAALLQNL  530 (711)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            4578999999999999999998764

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=92.38  E-value=0.11  Score=50.28  Aligned_cols=25  Identities=32%  Similarity=0.339  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|.|.|+.|.|||||++.++..+
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~l   28 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQL   28 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHHc
Confidence            3468999999999999999999875

>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=92.37  E-value=0.11  Score=46.41  Aligned_cols=21  Identities=24%  Similarity=0.463  Sum_probs=19.2

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|.|.+|+|||||.+.+...
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            689999999999999999874

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=92.36  E-value=0.16  Score=51.65  Aligned_cols=38  Identities=24%  Similarity=0.310  Sum_probs=29.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeee
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV  242 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~  242 (709)
                      .+..|.++||+|.||||..+.+...+..++.. .++.++
T Consensus        18 ~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~p-pYviNL   55 (366)
T KOG1532|consen   18 RPVIILVVGMAGSGKTTFMQRLNSHLHAKKTP-PYVINL   55 (366)
T ss_pred             CCcEEEEEecCCCCchhHHHHHHHHHhhccCC-CeEEeC
Confidence            46688889999999999999999888776544 344444

>PLN02200 adenylate kinase family protein

Probab=92.36  E-value=0.12  Score=52.67  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.+|.|.|++|+||||+|+.+++.+
T Consensus        42 ~~~ii~I~G~PGSGKsT~a~~La~~~   67 (234)
T PLN02200         42 TPFITFVLGGPGSGKGTQCEKIVETF   67 (234)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            35788999999999999999998764

>TIGR02173 cyt_kin_arch cytidylate kinase, putative

Probab=92.36  E-value=0.11  Score=49.76  Aligned_cols=23  Identities=35%  Similarity=0.567  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|.|++|+||||+|+.+.+++
T Consensus         2 iI~i~G~~GSGKstia~~la~~l   24 (171)
T TIGR02173         2 IITISGPPGSGKTTVAKILAEKL   24 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998864

Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=92.36  E-value=0.16  Score=43.08  Aligned_cols=25  Identities=32%  Similarity=0.595  Sum_probs=22.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ++.+.|.+|+||||++..++..++.
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            3678999999999999999998765

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PF02374 ArsA_ATPase: Anion-transporting ATPase; PDB: 2WOO_A 3IBG_B 3SJA_A 3H84_B 3SJD_A 3ZS9_A 3A37_A 2WOJ_A 3SJC_B 3A36_B

Probab=92.36  E-value=0.18  Score=53.43  Aligned_cols=35  Identities=26%  Similarity=0.448  Sum_probs=26.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +++.+.|-||+||||+|...+-....+-.....++
T Consensus         2 r~~~~~GKGGVGKTT~aaA~A~~~A~~G~rtLlvS   36 (305)
T PF02374_consen    2 RILFFGGKGGVGKTTVAAALALALARRGKRTLLVS   36 (305)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             eEEEEecCCCCCcHHHHHHHHHHHhhCCCCeeEee
Confidence            67899999999999999998887766533344443

...

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=92.34  E-value=0.27  Score=56.60  Aligned_cols=25  Identities=28%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|+.|.|||||++.+..-
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~  384 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGL  384 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999998753

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=92.32  E-value=0.27  Score=57.24  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|..|.|||||++.+...
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll~gl  392 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLLTRF  392 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhc
Confidence            3568999999999999999998764

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=92.31  E-value=0.42  Score=54.48  Aligned_cols=61  Identities=25%  Similarity=0.450  Sum_probs=37.5

Q ss_pred             hHHHHHHHccCceEEEecCCCC---hhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCcceEEEec
Q 005191          276 PQYIRDRLQRMKVFIVLDDVNK---YGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTHRIYEVE  339 (709)
Q Consensus       276 ~~~l~~~L~~kr~LLVLDdv~~---~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~~~~~~L~  339 (709)
                      .-.|.+.|-.++=+|+||.=-+   .+.+..+...+.. -+| .+||.|.++..+..+.. +++++.
T Consensus       161 Rv~LA~aL~~~pDlLLLDEPTNHLD~~~i~WLe~~L~~-~~g-tviiVSHDR~FLd~V~t-~I~~ld  224 (530)
T COG0488         161 RVALARALLEEPDLLLLDEPTNHLDLESIEWLEDYLKR-YPG-TVIVVSHDRYFLDNVAT-HILELD  224 (530)
T ss_pred             HHHHHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHHh-CCC-cEEEEeCCHHHHHHHhh-heEEec
Confidence            4456666778899999997632   3333333333322 345 79999999988776632 344443

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=92.28  E-value=0.15  Score=48.40  Aligned_cols=26  Identities=23%  Similarity=0.345  Sum_probs=23.2

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +++|+|+.|+|||||+..+...++.+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47899999999999999999987665

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=92.26  E-value=0.11  Score=49.69  Aligned_cols=28  Identities=25%  Similarity=0.380  Sum_probs=23.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      +-|.++||.|+||||+.+.+++.+.-.|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            3578999999999999999998765544

>cd03284 ABC_MutS1 MutS1 homolog in eukaryotes

Probab=92.25  E-value=0.28  Score=49.28  Aligned_cols=22  Identities=27%  Similarity=0.154  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ++++|+|+.|.||||+.+.++.
T Consensus        31 ~~~~l~Gpn~sGKstllr~i~~   52 (216)
T cd03284          31 QILLITGPNMAGKSTYLRQVAL   52 (216)
T ss_pred             eEEEEECCCCCChHHHHHHHHH
Confidence            7899999999999999999864

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clam

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.19  E-value=0.1  Score=51.06  Aligned_cols=24  Identities=21%  Similarity=0.382  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++|.|++|+|||||++.++...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhccC
Confidence            478999999999999999997754

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=92.18  E-value=0.42  Score=46.08  Aligned_cols=23  Identities=26%  Similarity=0.203  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.|.|.+|.|||++|..++.+.
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~   25 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQS   25 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHc
Confidence            58899999999999999998764

>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2

Probab=92.17  E-value=0.53  Score=49.18  Aligned_cols=26  Identities=27%  Similarity=0.446  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....++|+|..|.|||||.+.++.-+
T Consensus        29 ~Ge~~~IvG~nGsGKSTLl~~L~gl~   54 (275)
T cd03289          29 PGQRVGLLGRTGSGKSTLLSAFLRLL   54 (275)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhc
Confidence            45689999999999999999998754

The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=92.12  E-value=0.2  Score=45.33  Aligned_cols=47  Identities=19%  Similarity=0.307  Sum_probs=32.7

Q ss_pred             Cccccch----hhhHHHhhhhcc-CCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          183 GLIGLES----HVEQVRSLLAIG-LPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       183 ~~vGR~~----el~~L~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +++|-.-    -++.|.+.+... ++.+-|++.+|.+|+|||-+++.+++.+
T Consensus        26 ~l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~l   77 (127)
T PF06309_consen   26 NLFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEHL   77 (127)
T ss_pred             HccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHHH
Confidence            3555443    344444455432 3457899999999999999999998864

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

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=92.09  E-value=0.54  Score=52.99  Aligned_cols=48  Identities=23%  Similarity=0.178  Sum_probs=37.0

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++|....+.++.+.+.........+.|.|.+|+||+++|+.+...-
T Consensus       134 ~~lig~s~~~~~v~~~i~~~a~~~~~vli~Ge~GtGK~~~A~~ih~~~  181 (463)
T TIGR01818       134 AELIGEAPAMQEVFRAIGRLSRSDITVLINGESGTGKELVARALHRHS  181 (463)
T ss_pred             cceeecCHHHHHHHHHHHHHhCcCCeEEEECCCCCCHHHHHHHHHHhC
Confidence            458888888888877775433344567899999999999999887753

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.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=92.07  E-value=0.2  Score=48.71  Aligned_cols=38  Identities=16%  Similarity=0.340  Sum_probs=32.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeee
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV  242 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~  242 (709)
                      ...|.|-|++|+|||+|..+.++.++++|...+.-.++
T Consensus        13 ~~~i~v~Gp~GSGKTaLie~~~~~L~~~~~~aVI~~Di   50 (202)
T COG0378          13 MLRIGVGGPPGSGKTALIEKTLRALKDEYKIAVITGDI   50 (202)
T ss_pred             eEEEEecCCCCcCHHHHHHHHHHHHHhhCCeEEEecee
Confidence            47899999999999999999999999988776655433

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

Probab=92.07  E-value=0.21  Score=55.20  Aligned_cols=48  Identities=21%  Similarity=0.167  Sum_probs=32.7

Q ss_pred             CccccchhhhHHHhhhh-------cc-----C--CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          183 GLIGLESHVEQVRSLLA-------IG-----L--PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~-------~~-----~--~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .++|.+...+.+...+.       ..     +  .....+.++|++|+|||+||+.++..+.
T Consensus        72 ~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~~l~  133 (412)
T PRK05342         72 YVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLARILD  133 (412)
T ss_pred             HeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHHHhC
Confidence            46777776666643331       00     0  1135688999999999999999987653

>TIGR01287 nifH nitrogenase iron protein

Probab=92.06  E-value=0.16  Score=52.95  Aligned_cols=27  Identities=33%  Similarity=0.636  Sum_probs=23.5

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      |.|+|+|-||+||||++..++.-+...
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~   27 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEM   27 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHC
Confidence            468999999999999999999877654

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=92.05  E-value=0.33  Score=57.42  Aligned_cols=49  Identities=27%  Similarity=0.267  Sum_probs=36.4

Q ss_pred             hHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..|..+|. .+-+..+++-|+|++|+|||||+.+++......-...+|+.
T Consensus        46 ~~LD~lLg~GGip~GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId   95 (790)
T PRK09519         46 IALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID   95 (790)
T ss_pred             HHHHHhhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            34555565 34456789999999999999999998776555555667776

>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=92.05  E-value=0.11  Score=50.82  Aligned_cols=22  Identities=27%  Similarity=0.365  Sum_probs=20.0

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.++.++
T Consensus         2 I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           2 ILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6899999999999999998863

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>smart00072 GuKc Guanylate kinase homologues

Probab=92.04  E-value=0.13  Score=50.36  Aligned_cols=26  Identities=23%  Similarity=0.411  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+.+.|+|++|+|||||+..+.....
T Consensus         2 ~r~ivl~Gpsg~GK~tl~~~L~~~~~   27 (184)
T smart00072        2 RRPIVLSGPSGVGKGTLLAELIQEIP   27 (184)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhcCC
Confidence            36899999999999999999988753

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.

>PRK14532 adenylate kinase; Provisional

Probab=92.04  E-value=0.11  Score=50.73  Aligned_cols=22  Identities=23%  Similarity=0.243  Sum_probs=19.8

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.++++.
T Consensus         3 i~~~G~pGsGKsT~a~~la~~~   24 (188)
T PRK14532          3 LILFGPPAAGKGTQAKRLVEER   24 (188)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            6789999999999999998764

>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=92.03  E-value=0.11  Score=54.07  Aligned_cols=26  Identities=27%  Similarity=0.350  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+-+.++|++|+|||++++.+.....
T Consensus        33 ~~pvLl~G~~GtGKT~li~~~l~~l~   58 (272)
T PF12775_consen   33 GRPVLLVGPSGTGKTSLIQNFLSSLD   58 (272)
T ss_dssp             TEEEEEESSTTSSHHHHHHHHHHCST
T ss_pred             CCcEEEECCCCCchhHHHHhhhccCC
Confidence            46778999999999999999887543

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=92.02  E-value=0.15  Score=53.48  Aligned_cols=28  Identities=25%  Similarity=0.280  Sum_probs=23.8

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+.+|+|.|..|+||||+|+.+...+.
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4578999999999999999988766554

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PLN02318 phosphoribulokinase/uridine kinase

Probab=92.01  E-value=0.16  Score=57.73  Aligned_cols=32  Identities=38%  Similarity=0.459  Sum_probs=26.2

Q ss_pred             hhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          198 LAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       198 L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +....++..+|+|.|++|.||||||+.+...+
T Consensus        58 L~~~~~~riIIGIaGpSGSGKTTLAk~LaglL   89 (656)
T PLN02318         58 LAQKNDGIILVGVAGPSGAGKTVFTEKVLNFM   89 (656)
T ss_pred             HHhcCCCeEEEEEECCCCCcHHHHHHHHHhhC
Confidence            33344567899999999999999999998764

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

Probab=92.01  E-value=0.33  Score=50.32  Aligned_cols=30  Identities=27%  Similarity=0.369  Sum_probs=25.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      .+..++|||++|.|||-||+.++..+--+|
T Consensus       165 ~Pkg~ll~GppGtGKTlla~~Vaa~mg~nf  194 (388)
T KOG0651|consen  165 PPKGLLLYGPPGTGKTLLARAVAATMGVNF  194 (388)
T ss_pred             CCceeEEeCCCCCchhHHHHHHHHhcCCce
Confidence            367899999999999999999999875554

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=92.00  E-value=0.46  Score=50.74  Aligned_cols=45  Identities=13%  Similarity=0.309  Sum_probs=36.0

Q ss_pred             chhhhHHHhhhhccC-CCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          188 ESHVEQVRSLLAIGL-PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       188 ~~el~~L~~~L~~~~-~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +.-.+.|.+.+...+ +...+|+|.|.=|+|||++.+.+.+.+...
T Consensus         2 ~~~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~L~~~   47 (325)
T PF07693_consen    2 KPYAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEELKED   47 (325)
T ss_pred             hHHHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHHHhcc
Confidence            344566677776543 678999999999999999999999988776

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PLN02348 phosphoribulokinase

Probab=91.99  E-value=0.24  Score=53.74  Aligned_cols=30  Identities=20%  Similarity=0.268  Sum_probs=26.2

Q ss_pred             CCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          202 LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       202 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .+...+|+|.|.+|.||||+|+.+.+.+..
T Consensus        46 ~~~p~IIGIaG~SGSGKSTfA~~L~~~Lg~   75 (395)
T PLN02348         46 DDGTVVIGLAADSGCGKSTFMRRLTSVFGG   75 (395)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            346789999999999999999999988754

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=91.99  E-value=0.14  Score=51.45  Aligned_cols=24  Identities=33%  Similarity=0.484  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|+|.+|+|||||++.++-
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhc
Confidence            457999999999999999999875

>PRK03731 aroL shikimate kinase II; Reviewed

Probab=91.98  E-value=0.13  Score=49.55  Aligned_cols=23  Identities=26%  Similarity=0.319  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.|+|++|+||||+|+.+++++
T Consensus         4 ~i~~~G~~GsGKst~~~~la~~l   26 (171)
T PRK03731          4 PLFLVGARGCGKTTVGMALAQAL   26 (171)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            57889999999999999999875

>TIGR00665 DnaB replicative DNA helicase

Probab=91.95  E-value=1.4  Score=49.42  Aligned_cols=71  Identities=20%  Similarity=0.196  Sum_probs=43.0

Q ss_pred             cccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHHHHHHHh
Q 005191          185 IGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRNQVLSKL  263 (709)
Q Consensus       185 vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l  263 (709)
                      .|-..-...|-+++. +-....++.|.|.+|+|||+++..++.....+ -..++|++ +.      ....++...++...
T Consensus       176 ~gi~tG~~~LD~~~~-G~~~G~l~vi~g~pg~GKT~~~l~~a~~~a~~~g~~vl~~S-lE------m~~~~i~~R~~~~~  247 (434)
T TIGR00665       176 TGVPTGFTDLDKLTS-GLQPSDLIILAARPSMGKTAFALNIAENAAIKEGKPVAFFS-LE------MSAEQLAMRMLSSE  247 (434)
T ss_pred             CcccCCchhhHhhcC-CCCCCeEEEEEeCCCCChHHHHHHHHHHHHHhCCCeEEEEe-Cc------CCHHHHHHHHHHHh
Confidence            344444444544442 33346799999999999999999998875432 22344554 11      23445555555544

This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=91.92  E-value=0.2  Score=49.05  Aligned_cols=25  Identities=24%  Similarity=0.470  Sum_probs=22.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +|+|.|+.|+||||+++.+++.+..
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~l~~   26 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAERLEA   26 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999998754

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PRK06761 hypothetical protein; Provisional

Probab=91.91  E-value=0.18  Score=52.63  Aligned_cols=27  Identities=37%  Similarity=0.534  Sum_probs=24.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ++|.|.|++|+||||+++.+++.+...
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~L~~~   30 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDILSQN   30 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHhcCcC
Confidence            579999999999999999999987643

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=91.85  E-value=0.17  Score=47.80  Aligned_cols=25  Identities=32%  Similarity=0.597  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+++|+|.+|+||||+.+.+...+
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHHH
Confidence            5789999999999999998877765

>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=91.85  E-value=0.15  Score=44.90  Aligned_cols=23  Identities=39%  Similarity=0.292  Sum_probs=20.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~  226 (709)
                      ....++|.|++|.|||||+..+.
T Consensus        14 ~ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          14 GKVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CCEEEEEEcCCCCCHHHHHHHhh
Confidence            34789999999999999999876

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

>PRK14531 adenylate kinase; Provisional

Probab=91.84  E-value=0.14  Score=49.98  Aligned_cols=24  Identities=25%  Similarity=0.224  Sum_probs=21.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.|.|.|++|.||||+++.++..+
T Consensus         3 ~~i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          3 QRLLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            358899999999999999998874

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=91.84  E-value=0.38  Score=57.45  Aligned_cols=25  Identities=36%  Similarity=0.381  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|..|.|||||++.+..-
T Consensus       504 ~Ge~vaIvG~sGsGKSTLlklL~gl  528 (710)
T TIGR03796       504 PGQRVALVGGSGSGKSTIAKLVAGL  528 (710)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4578999999999999999998753

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=91.78  E-value=5.3  Score=41.96  Aligned_cols=66  Identities=14%  Similarity=0.177  Sum_probs=42.5

Q ss_pred             cCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhcC-cceEEEecCCChHHHHHHhh
Q 005191          285 RMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERYG-THRIYEVEGLNCNEALRLFC  351 (709)
Q Consensus       285 ~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~~-~~~~~~L~~L~~~ea~~Lf~  351 (709)
                      +++-++|+|+++.  ....+.++..+..-.+++.+|++|.+. .+++... .-..+.+.+ +.++..+.+.
T Consensus       103 ~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~  172 (290)
T PRK07276        103 GKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLE  172 (290)
T ss_pred             CCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHH
Confidence            3556899999975  456777777776656667777777555 4444332 235667766 6666666664

>PHA02530 pseT polynucleotide kinase; Provisional

Probab=91.78  E-value=0.14  Score=54.24  Aligned_cols=24  Identities=25%  Similarity=0.277  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+|.+.|++|+||||+|+.+.+++
T Consensus         3 ~liil~G~pGSGKSTla~~L~~~~   26 (300)
T PHA02530          3 KIILTVGVPGSGKSTWAREFAAKN   26 (300)
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHHC
Confidence            578899999999999999998875

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=91.73  E-value=0.36  Score=54.97  Aligned_cols=134  Identities=19%  Similarity=0.246  Sum_probs=69.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc---c--c---ceEEEeeeccc-c----------cccCC-HHHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK---F--E---GKYFMANVREE-S----------EKCGG-LVHLRNQVLSKL  263 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---f--~---~~~~v~~~~~~-~----------~~~~~-l~~l~~~ll~~l  263 (709)
                      ....|+|+|+.|+|||||.+.+.......   .  .   ...|+..-... .          +.... ...-.+..+..+
T Consensus       347 ~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~f  426 (530)
T COG0488         347 RGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGRF  426 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHHc
Confidence            35689999999999999999996643222   0  0   11111111100 0          00001 023333444443


Q ss_pred             cCCCC-------CCCCCC-hhHHHHHHHccCceEEEecCCC---ChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhcCc
Q 005191          264 LGENF-------DIGTPK-IPQYIRDRLQRMKVFIVLDDVN---KYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGT  332 (709)
Q Consensus       264 ~~~~~-------~~~~~~-~~~~l~~~L~~kr~LLVLDdv~---~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~~~  332 (709)
                      +-...       ..+..+ ..-.+...+-.++-+||||.=-   +.+..+.+...+..+ +| .||+.|.++....... 
T Consensus       427 ~F~~~~~~~~v~~LSGGEk~Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f-~G-tvl~VSHDr~Fl~~va-  503 (530)
T COG0488         427 GFTGEDQEKPVGVLSGGEKARLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDF-EG-TVLLVSHDRYFLDRVA-  503 (530)
T ss_pred             CCChHHHhCchhhcCHhHHHHHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhC-CC-eEEEEeCCHHHHHhhc-
Confidence            21111       112222 3334555566789999999763   233334444333322 34 5888888888777664 


Q ss_pred             ceEEEecC
Q 005191          333 HRIYEVEG  340 (709)
Q Consensus       333 ~~~~~L~~  340 (709)
                      .+++.+.+
T Consensus       504 ~~i~~~~~  511 (530)
T COG0488         504 TRIWLVED  511 (530)
T ss_pred             ceEEEEcC
Confidence            45666664

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	709
3jrn_A	176	Crystal Structure Of Tir Domain From Arabidopsis Th		3e-33
3ozi_A	204	Crystal Structure Of The Tir Domain From The Flax D		8e-32
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		9e-07
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		5e-06
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		8e-06
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		1e-05

>pdb|3JRN|A Chain A, Crystal Structure Of Tir Domain From Arabidopsis Thaliana Length = 176

Iteration: 1
 Score =  140 bits (353), Expect = 3e-33,   Method: Compositional matrix adjust.
 Identities = 81/170 (47%), Positives = 105/170 (61%), Gaps = 6/170 (3%)
Query: 2   ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESM 60
            + KYDVFLSFRG DTR NF+S L   L  + I+TF D+ EL  G + SP L   IE S 
Sbjct: 5   TATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSR 64
Query: 61  ISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKH 120
            +V++ S+NYA+S WCLDELV I+   KK    V+PIFY V+P+ VR QTG   + F KH
Sbjct: 65  FAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKH 124
Query: 121 DKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEK 170
               +++ PEKV KWR  LT  + LSG    +   D+KLV +I  +I  K
Sbjct: 125 A---SREDPEKVLKWRQALTNFAQLSG--DCSGDDDSKLVDKIANEISNK 169

>pdb|3OZI|A Chain A, Crystal Structure Of The Tir Domain From The Flax Disease Resistance Protein L6 Length = 204

Iteration: 1
 Score =  135 bits (340), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 72/175 (41%), Positives = 108/175 (61%), Gaps = 5/175 (2%)
Query: 1   MASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEES 59
             S +Y+VFLSFRG DTR+ F   L  +L+  KI TF D+ EL +G +I P L++AI++S
Sbjct: 31  FPSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQS 90
Query: 60  MISVIIFSKNYASSKWCLDELVKILKCHKKNI-QLVIPIFYNVDPSVVRNQTGSFKDAFV 118
            I V I S  YA SKWCL EL +I++  +++  ++++PIFY VDPS VR+QTG +K AF 
Sbjct: 91  KIYVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFR 150
Query: 119 KHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEK 173
           KH  +F+ +    +Q W+  L +  +L GW          +  +++ADI   + K
Sbjct: 151 KHANKFDGQT---IQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHISK 202

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 52.4 bits (124), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 83/329 (25%), Positives = 138/329 (41%), Gaps = 58/329 (17%)
Query: 208 VGIWGMGGIGKTTIAGVVFNQFS---QKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL 264
           V I+GM G GK+ +A       S     F G     ++ ++ +K G L+ L+N  +    
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ-DKSGLLMKLQNLCMRLDQ 208
Query: 265 GENFDIGTPKIPQYIRDRLQRM------KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRII 318
            E+F    P   +  +DRL+ +      +  ++LDDV     L+ FD          +I+
Sbjct: 209 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDN-------QCQIL 261
Query: 319 VTTRDKTILER-YGTHRIYEVE-GLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAK 376
           +TTRDK++ +   G   +  VE GL   + L +    +   N   EDL   + +     K
Sbjct: 262 LTTRDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSIIKECK 318
Query: 377 GNPLALQVLGSSFHRKSKPDWVNTLNNL-----KRISDSDIYG------VLKIGYDELSW 425
           G+PL + ++G+   R     W   L  L     KRI  S  Y        + I  + L  
Sbjct: 319 GSPLVVSLIGALL-RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE 377
Query: 426 EEKNLFLDIACFFNGDDREH-----VMWILNDDYYSVQYGLNVLVNKSLIKISYNK---- 476
           + K+ + D++     D +       V+W L  +   V+  L   VNKSL+  + N     
Sbjct: 378 DIKDYYTDLS-ILQKDVKVPTKVLCVLWDLETE--EVEDILQEFVNKSLLFCNRNGKSFC 434
Query: 477 LQMHDL------------LQEMGREIVCQ 493
             +HDL            LQ++ R++V Q
Sbjct: 435 YYLHDLQVDFLTEKNRSQLQDLHRKMVTQ 463

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 50.1 bits (118), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 82/329 (24%), Positives = 137/329 (41%), Gaps = 58/329 (17%)
Query: 208 VGIWGMGGIGKTTIAGVVFNQFS---QKFEGKYFMANVREESEKCGGLVHLRNQVLSKLL 264
           V I+GM G GK+ +A       S     F G     ++ ++ +K G L+ L+N  +    
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQ-DKSGLLMKLQNLCMRLDQ 215
Query: 265 GENFDIGTPKIPQYIRDRLQRM------KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRII 318
            E+F    P   +  +DRL+ +      +  ++LDDV     L+ FD          +I+
Sbjct: 216 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDN-------QCQIL 268
Query: 319 VTTRDKTILER-YGTHRIYEVE-GLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAK 376
           +TT DK++ +   G   +  VE GL   + L +    +   N   EDL   + +     K
Sbjct: 269 LTTSDKSVTDSVMGPKHVVPVESGLGREKGLEIL---SLFVNMKKEDLPAEAHSIIKECK 325
Query: 377 GNPLALQVLGSSFHRKSKPDWVNTLNNL-----KRISDSDIYG------VLKIGYDELSW 425
           G+PL + ++G+   R     W   L  L     KRI  S  Y        + I  + L  
Sbjct: 326 GSPLVVSLIGALL-RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRE 384
Query: 426 EEKNLFLDIACFFNGDDREH-----VMWILNDDYYSVQYGLNVLVNKSLIKISYNK---- 476
           + K+ + D++     D +       V+W L  +   V+  L   VNKSL+  + N     
Sbjct: 385 DIKDYYTDLS-ILQKDVKVPTKVLCVLWDLETE--EVEDILQEFVNKSLLFCNRNGKSFC 441
Query: 477 LQMHDL------------LQEMGREIVCQ 493
             +HDL            LQ++ R++V Q
Sbjct: 442 YYLHDLQVDFLTEKNRSQLQDLHRKMVTQ 470

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 89/349 (25%), Positives = 143/349 (40%), Gaps = 54/349 (15%)
Query: 208 VGIWGMGGIGKTTIAGVVFNQFSQK---FEGKYFMANVREESEKCGGLVHLRNQVLSKLL 264
           V I GM G GK+ +A       S     F G     +V ++ +K G L+ L+N       
Sbjct: 150 VTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQ-DKSGLLMKLQNLCTRLDQ 208
Query: 265 GENFDIGTPKIPQYIRDRLQRM------KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRII 318
            E+F    P   +  +DRL+ +      +  ++LDDV     L+ FD          +I+
Sbjct: 209 DESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFDSQ-------CQIL 261
Query: 319 VTTRDKTILER-YGTHRIYEVE-------GLNCNEALRLFCSCAFKENHCPEDLLKHSET 370
           +TTRDK++ +   G   +  VE       GL   E L LF       N    DL + + +
Sbjct: 262 LTTRDKSVTDSVMGPKYVVPVESSLGKEKGL---EILSLFV------NMKKADLPEQAHS 312
Query: 371 AAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNL-----KRISDSDIYG------VLKIG 419
                KG+PL + ++G+   R     W   L  L     KRI  S  Y        + I 
Sbjct: 313 IIKECKGSPLVVSLIGALL-RDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 371
Query: 420 YDELSWEEKNLFLDIACFFNGDDR--EHVMWILND-DYYSVQYGLNVLVNKSLIKISYN- 475
            + L  + K+ + D++     D +    V+ IL D +   V+  L   VNKSL+    N 
Sbjct: 372 VEMLREDIKDYYTDLS-ILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKSLLFCDRNG 430
Query: 476 ---KLQMHDLLQEMGREIVCQEFREKPEKRSRLWDHKDVCHVLEKNKED 521
              +  +HDL  +   E  C + ++  +K    +      H L  ++ED
Sbjct: 431 KSFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQED 479

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	709
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	6e-95
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	8e-95
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	1e-68
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-49
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-41
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-38
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	1e-24
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	9e-16
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	7e-08
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	4e-07
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	3e-05
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	7e-05

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum} Length = 204

 Score =  291 bits (748), Expect = 6e-95
 Identities = 72/175 (41%), Positives = 109/175 (62%), Gaps = 5/175 (2%)

Query: 3   SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFID-EELTRGDQISPALVKAIEESMI 61
           S +Y+VFLSFRG DTR+ F   L  +L+  KI TF D +EL +G +I P L++AI++S I
Sbjct: 33  SVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKI 92

Query: 62  SVIIFSKNYASSKWCLDELVKILKCHKKN-IQLVIPIFYNVDPSVVRNQTGSFKDAFVKH 120
            V I S  YA SKWCL EL +I++  +++  ++++PIFY VDPS VR+QTG +K AF KH
Sbjct: 93  YVPIISSGYADSKWCLMELAEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKH 152

Query: 121 DKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLS 175
             +F+    + +Q W+  L +  +L GW          +  +++ADI   + K +
Sbjct: 153 ANKFDG---QTIQNWKDALKKVGDLKGWHIGKNDKQGAIADKVSADIWSHISKEN 204

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana} Length = 176

 Score =  290 bits (744), Expect = 8e-95
 Identities = 83/179 (46%), Positives = 106/179 (59%), Gaps = 9/179 (5%)

Query: 1   MAS---CKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFID-EELTRGDQISPALVKAI 56
           M+S    KYDVFLSFRG DTR NF+S L   L  + I+TF D +EL  G + SP L   I
Sbjct: 1   MSSHTATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPI 60

Query: 57  EESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDA 116
           E S  +V++ S+NYA+S WCLDELV I+   KK    V+PIFY V+P+ VR QTG   + 
Sbjct: 61  EVSRFAVVVVSENYAASSWCLDELVTIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQ 120

Query: 117 FVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLS 175
           F KH  + +    EKV KWR  LT  + LSG  S     D+KLV +I  +I  K    +
Sbjct: 121 FKKHASREDP---EKVLKWRQALTNFAQLSGDCSG--DDDSKLVDKIANEISNKKTIYA 174

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222} Length = 154

 Score =  221 bits (564), Expect = 1e-68
 Identities = 23/138 (16%), Positives = 59/138 (42%), Gaps = 5/138 (3%)

Query: 3   SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMI 61
           +  +D+F+S   ED + +F+  L   L+    + + D+  L  GD +  ++ K +  S  
Sbjct: 18  APPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRF 76

Query: 62  SVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHD 121
            +++ S ++   +W   EL  + +        ++PI++ V    V + + +  D    + 
Sbjct: 77  GIVVLSTHFFKKEWPQKELDGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLAFNT 136

Query: 122 KQFNKKMPEKVQKWRAVL 139
              +    +++      +
Sbjct: 137 STKSV---DEIVADLMAI 151

>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 =  187 bits (475), Expect = 1e-49
 Identities = 81/522 (15%), Positives = 166/522 (31%), Gaps = 120/522 (22%)

Query: 53  VKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSVVRNQTGS 112
            K +++   S++        SK  +D ++      K  +   + +F+      + ++   
Sbjct: 35  CKDVQDMPKSIL--------SKEEIDHIIMS----KDAVSGTLRLFW-----TLLSKQEE 77

Query: 113 FKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLE 172
               FV+   + N        K+   L          +   +P       +T   +E+ +
Sbjct: 78  MVQKFVEEVLRIN-------YKF---LMSP-----IKTEQRQPSM-----MTRMYIEQRD 117

Query: 173 KLSAAISDSDGLIGL----ESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ 228
           +L    +D+               ++R  L + L   + V I G+ G GKT +A  V   
Sbjct: 118 RLY---NDNQVFAKYNVSRLQPYLKLRQAL-LELRPAKNVLIDGVLGSGKTWVALDVCLS 173

Query: 229 FS--QKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDI---GTPKIPQYI---R 280
           +    K + K F  N++  +     L  L+   L   +  N+      +  I   I   +
Sbjct: 174 YKVQCKMDFKIFWLNLKNCNSPETVLEMLQK--LLYQIDPNWTSRSDHSSNIKLRIHSIQ 231

Query: 281 DRLQRM-------KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERYGTH 333
             L+R+          +VL +V        F+          +I++TTR K + +     
Sbjct: 232 AELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS-------CKILLTTRFKQVTDFLSAA 284

Query: 334 RIYEV------EGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS 387
               +        L  +E   L          C    L            NP  L ++  
Sbjct: 285 TTTHISLDHHSMTLTPDEVKSLLLKYL----DCRPQDLPREVL-----TTNPRRLSIIAE 335

Query: 388 SFHRKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEE-KNLFLDIACFFNGDDREHV 446
           S       D + T +N K ++   +  +++   + L   E + +F  ++ F         
Sbjct: 336 SIR-----DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVF-----PPSA 385

Query: 447 ---------MWILNDDYYSVQYGLNVLVNKSLIKISYNK--LQMHDLLQEMGREIVCQEF 495
                    +W  +     V   +N L   SL++    +  + +  +  E+       + 
Sbjct: 386 HIPTILLSLIW-FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL-----KVKL 439

Query: 496 REKPEKRSRLWDH----KDVC-HVLEKNKEDSYSPAIFFGVG 532
             +      + DH    K      L     D Y    +  +G
Sbjct: 440 ENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY---FYSHIG 478

>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 = 54.5 bits (130), Expect = 1e-07
 Identities = 74/523 (14%), Positives = 145/523 (27%), Gaps = 143/523 (27%)

Query: 156 DAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGG 215
           D K V+++   IL K E         D +I  +  V     L             W +  
Sbjct: 34  DCKDVQDMPKSILSKEE--------IDHIIMSKDAVSGTLRL------------FWTLLS 73

Query: 216 IGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKI 275
             +  +   V       ++  + M+ ++ E  +   +  +  +   +L  +N        
Sbjct: 74  KQEEMVQKFVEEVLRINYK--FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN-----QVF 126

Query: 276 PQY----------IRDRLQRMKV--FIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRD 323
            +Y          +R  L  ++    +++      G       G    G     +     
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLI-----DG-----VLG---SGKTWVALDVCLS 173

Query: 324 KTILERYGTHRIYEVEGLNCN------EALRLFCSCAFKENHCPEDLLKHSETAAHYAKG 377
             +  +    +I+ +   NCN      E L+              D   + +   H  + 
Sbjct: 174 YKVQCKMD-FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 378 NPLALQVLGSSFHRKSKPD--------W-VNTLN--NLK-RI----SDSDIYGVLKIGY- 420
               L         K   +              N  NL  +I        +   L     
Sbjct: 233 ELRRL------LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286

Query: 421 -----DELSW-----EEKNLFLDIACFFNGDDREHVMWI-----------LNDDYYSVQY 459
                D  S      E K+L L        D    V+             + D   +   
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 460 GLNVLVNK--SLIKISYNKLQMHDLLQEMGREIVCQEFREK---PEKR-SRLWDHKDV-- 511
             +V  +K  ++I+ S N L+     ++M   +    F      P    S +W       
Sbjct: 347 WKHVNCDKLTTIIESSLNVLE-PAEYRKMFDRLSV--FPPSAHIPTILLSLIWFDVIKSD 403

Query: 512 -------CH---VLEKN-KEDSYS-PAIFFGVGCKFGFD---HFCQLVGNVCVNSNHVIL 556
                   H   ++EK  KE + S P+I+  +  K   +   H         V+  ++  
Sbjct: 404 VMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH------RSIVDHYNIPK 457

Query: 557 GFYPCWNIGLS--DGATVSFDFFIIPYQLVIGKGGGNKTNDFR 597
             +   ++     D     + +  I + L        +   FR
Sbjct: 458 T-FDSDDLIPPYLDQ----YFYSHIGHHL-KNIEHPERMTLFR 494

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  157 bits (398), Expect = 4e-41
 Identities = 67/492 (13%), Positives = 134/492 (27%), Gaps = 73/492 (14%)

Query: 46  DQISPALVKAIEESMISVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVDPSV 105
             I     +     +    IF+++        + + K+    ++    +          +
Sbjct: 16  RLIHDFEPRDALTYLEGKNIFTED------HSELISKMSTRLERIANFL---------RI 60

Query: 106 VRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITA 165
            R Q           +      + + ++ +        +L        +   +++     
Sbjct: 61  YRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRK-- 118

Query: 166 DILEKLEKLSAAISDSDGLIGLESHVEQVRS-LLAIGLPDVRLVGIWGMGGIGKTTIAGV 224
                   L   +         E HV++V   L  +   D   + + G  G GK+ IA  
Sbjct: 119 -------LLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQ 171

Query: 225 VFN---QFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD 281
             +   Q                 + K      L   +L  L  E+  +  P +      
Sbjct: 172 ALSKSDQLIGINYDSIVWLKDSGTAPK--STFDLFTDILLMLKSEDDLLNFPSVEHVTSV 229

Query: 282 RLQRM---------KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILER-YG 331
            L+RM             V DDV +   + +            R +VTTRD  I      
Sbjct: 230 VLKRMICNALIDRPNTLFVFDDVVQEETIRWA------QELRLRCLVTTRDVEISNAASQ 283

Query: 332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHR 391
           T    EV  L  +E      +         E            + GNP  L +   S   
Sbjct: 284 TCEFIEVTSLEIDECYDFLEAYGMPMP-VGEKEEDVLNKTIELSSGNPATLMMFFKSCEP 342

Query: 392 KSKPDWVNTLNNLKRISDS-----------DIYGVLKIGYDELSWEEKNLFLDIACFFNG 440
           K+        N L+                 +   L+   + LS E+++          G
Sbjct: 343 KTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPG 402

Query: 441 DD--REHVMWILNDDYYS---------VQYGLNVLVNKSLI----KISYNKLQMHDLLQE 485
            D   +    ++  D  S         V   L  L  +  +    ++     ++  ++  
Sbjct: 403 VDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALLSGKRMPVLTFKIDHIIHM 462

Query: 486 MGREIVCQEFRE 497
             + +V  +   
Sbjct: 463 FLKHVVDAQTIA 474

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  150 bits (381), Expect = 1e-38
 Identities = 84/458 (18%), Positives = 160/458 (34%), Gaps = 85/458 (18%)

Query: 130 EKVQKWRAVLTEASNLSGWDSNTTRPDAKLVKEITADILEKLEKLSAAISDSDG------ 183
           E  Q+ RA +     L   + +       L+ E   D+   L      +S S G      
Sbjct: 46  EPTQQQRAAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKDSVSG 105

Query: 184 --------------------LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAG 223
                                +  +  V  ++  L+    +   V I GM G GK+ +A 
Sbjct: 106 ITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAA 165

Query: 224 VVFNQFSQK---FEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIR 280
                 S     F G     +V ++  K G L+ L+N        E+F    P   +  +
Sbjct: 166 EAVRDHSLLEGCFPGGVHWVSVGKQD-KSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAK 224

Query: 281 DRLQRM------KVFIVLDDV-NKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILE--RYG 331
           DRL+ +      +  ++LDDV +           L  F    +I++TTRDK++ +     
Sbjct: 225 DRLRILMLRKHPRSLLILDDVWDS----WV----LKAFDSQCQILLTTRDKSVTDSVMGP 276

Query: 332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHR 391
            + +     L   + L +             DL + + +     KG+PL + ++G+    
Sbjct: 277 KYVVPVESSLGKEKGLEILSLFVN---MKKADLPEQAHSIIKECKGSPLVVSLIGALLRD 333

Query: 392 KSK--PDWVNTLNN--LKRISDS------DIYGVLKIGYDELSWEEKNLFLDIACF---- 437
                  ++  L N   KRI  S       +   + I  + L  + K+ + D++      
Sbjct: 334 FPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDV 393

Query: 438 -FNGDDREHV--MWILN----DDYYSVQYGLNVLVNKSLIKISYN----KLQMHDLLQEM 486
                  + +  +W +     +D       L   VNKSL+    N    +  +HDL  + 
Sbjct: 394 KV---PTKVLCILWDMETEEVEDI------LQEFVNKSLLFCDRNGKSFRYYLHDLQVDF 444

Query: 487 GREIVCQEFREKPEKR-SRLWDHKDVCHVLEKNKEDSY 523
             E  C + ++  +K  ++   +     +    ++  Y
Sbjct: 445 LTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQEDCMY 482

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score =  109 bits (273), Expect = 1e-24
 Identities = 104/546 (19%), Positives = 181/546 (33%), Gaps = 82/546 (15%)

Query: 181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS---QKFEGKY 237
               +  +  V  ++  L     +   V I+GM G GK+ +A       S     F G  
Sbjct: 123 PVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGV 182

Query: 238 F-----MANVREESEKCGGLVHL--RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFI 290
                   +      K   L     + +  S+ L  N +    ++   +  +  R    +
Sbjct: 183 HWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPR--SLL 240

Query: 291 VLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERY-GTHRIYEVE-GLNCNEALR 348
           +LDDV     L+ FD          +I++TTRDK++ +   G   +  VE GL   + L 
Sbjct: 241 ILDDVWDPWVLKAFD-------NQCQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLE 293

Query: 349 LFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNL---- 404
           +    +   N   EDL   + +     KG+PL + ++G+   R     W   L  L    
Sbjct: 294 IL---SLFVNMKKEDLPAEAHSIIKECKGSPLVVSLIGALL-RDFPNRWAYYLRQLQNKQ 349

Query: 405 -KRISDS------DIYGVLKIGYDELSWEEKNLFLDIACFFNGD----DREHVMWILNDD 453
            KRI  S       +   + I  + L  + K+ + D++              V+W L  +
Sbjct: 350 FKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETE 409

Query: 454 YYSVQYGLNVLVNKSLIKISYN----KLQMHDL------------LQEMGREIVCQEFRE 497
              V+  L   VNKSL+  + N       +HDL            LQ++ R++V Q  R 
Sbjct: 410 --EVEDILQEFVNKSLLFCNRNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRY 467

Query: 498 -------KPEKRSRLWDHKDVCHVLEKNKEDSYSPAIFFGVGCKFGFDHFCQLVGNVCVN 550
                    ++    W +    H+   N              C   F           V 
Sbjct: 468 YQPHTLSPDQEDCMYWYNFLAYHMASANMHKEL---------CALMFSLDWIKAKTELVG 518

Query: 551 SNHVILGFYPCWNIGLSDGATVSFDF--FIIPYQLVIGKGGGNKTNDFRAAAADVIQVRV 608
             H+I  F    +I       V  +F  F+     ++G+              +  +V  
Sbjct: 519 PAHLIHEFVAYRHILDEKDCAVCENFQEFLSLNGHLLGRQPFPNIVQLGLCEPETSEVYR 578

Query: 609 AATVFKFEHGDCTTRSRRREKDGELAFNLKQV----ASAVMCLRWSSDLVFSLLLIASQI 664
            A +   + GD             +    + V      AV    +S D     +      
Sbjct: 579 QAKLQAKQEGDTGRLYLEWINKKTIKNLSRLVVRPHTDAVYHACFSQDG--QRIASCGAD 636

Query: 665 KVLKLW 670
           K L+++
Sbjct: 637 KTLQVF 642

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A Length = 146

 Score = 74.0 bits (182), Expect = 9e-16
 Identities = 23/113 (20%), Positives = 42/113 (37%), Gaps = 9/113 (7%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKK--IKTFIDE-ELTRGDQISPALVKAIEESMI 61
            YDV +    ED        LV  L+     ++ F+   + T G  I   L +A+  S  
Sbjct: 10  DYDVCVCHSEEDLV--AAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHC 67

Query: 62  SVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVD----PSVVRNQT 110
            V++ +  +    WC  ++++ L          IP+   +     P  +R   
Sbjct: 68  RVLLITPGFLQDPWCKYQMLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMY 120

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens} Length = 159

 Score = 51.6 bits (123), Expect = 7e-08
 Identities = 24/119 (20%), Positives = 44/119 (36%), Gaps = 14/119 (11%)

Query: 5   KYDVFLSFRGEDTR---------DNFLSHLVVALQEKK--IKTFIDE-ELTRGDQISPAL 52
            YD +LS+   D           + F   ++  + EK    K FI + +L         +
Sbjct: 2   DYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDV 61

Query: 53  VKAIEESMISVIIFSKNYA-SSKWCLDELVKIL-KCHKKNIQLVIPIFYNVDPSVVRNQ 109
            + +++S   +I+ + NY     W + EL   L          VI I  +    ++  Q
Sbjct: 62  ARCVDQSKRLIIVMTPNYVVRRGWSIFELETRLRNMLVTGEIKVILIECSELRGIMNYQ 120

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A Length = 178

 Score = 49.9 bits (119), Expect = 4e-07
 Identities = 23/100 (23%), Positives = 42/100 (42%), Gaps = 5/100 (5%)

Query: 4   CKYDVFLSFRGEDTRDNFLSHLVVALQEKK--IKTFIDEE-LTRGDQISPALVKAIEESM 60
            ++  F+S+   D      + L+  L+++   I   + E     G  IS  +V  IE+S 
Sbjct: 34  VRFHAFISYSEHD-SLWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSY 92

Query: 61  ISVIIFSKNYASSKWCLDELVKIL-KCHKKNIQLVIPIFY 99
            S+ + S N+  ++WC  E          +N   +I I  
Sbjct: 93  KSIFVLSPNFVQNEWCHYEFYFAHHNLFHENSDHIILILL 132

>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} Length = 384

 Score = 45.9 bits (108), Expect = 3e-05
 Identities = 48/363 (13%), Positives = 112/363 (30%), Gaps = 34/363 (9%)

Query: 182 DGLIGLESHVEQVRSLLAIGLPDVRL--VGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM 239
             +   E  +      +   + +         G+ G GKT ++  +FN+  +  +     
Sbjct: 20  KEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEY 79

Query: 240 ANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQY-------IRDRLQRMKVFIVL 292
            +V++    C  +      VLS L G+      PK           I++  + ++  I L
Sbjct: 80  KDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYL 139

Query: 293 DDVNKYGQLEYFDGGL-DRFGPGSR--IIVTTRDKTILE--------RYGTHRIYEVEGL 341
           D+V+   +    D  L       +   +I+ + D  + +          G   I++    
Sbjct: 140 DEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDA 199

Query: 342 N-CNEALRLFCSCAFKENHCPEDLLKH-SETAAHYAKGNPLALQVLGSSFHRKSKPDWVN 399
                 L  +      +    +++L + +  +A        A+ +L  +    S    + 
Sbjct: 200 EQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGGGII- 258

Query: 400 TLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGDDREHVMWILNDDYYSVQY 459
              ++ +         L      L +  K     +    +      +   L + +     
Sbjct: 259 RKEHVDKAIVDYEQERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPL 318

Query: 460 G-------LNVLVNKSLIKISYNKLQMHDLLQE----MGREIVCQEFREKPEKRSRLWDH 508
                   ++ L    ++KI          +++      +E V +   E  E    + D 
Sbjct: 319 SYRRFSDIISELDMFGIVKIRIINRGRAGGVKKYALVEDKEKVLRALNETFEDSISIGDF 378

Query: 509 KDV 511
            DV
Sbjct: 379 DDV 381

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A Length = 149

 Score = 42.5 bits (100), Expect = 7e-05
 Identities = 22/98 (22%), Positives = 39/98 (39%), Gaps = 5/98 (5%)

Query: 6   YDVFLSFRGEDTRDNFLSHLVVALQEKKIK---TFIDEELTRGDQISPALVKAIEESMIS 62
           YD F+S+   D      + +V  L+             +   G  I   ++ +IE+S  +
Sbjct: 6   YDAFVSYSERD-AYWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKT 64

Query: 63  VIIFSKNYASSKWCLDELVKIL-KCHKKNIQLVIPIFY 99
           V + S+N+  S+W   EL     +   +N    I I  
Sbjct: 65  VFVLSENFVKSEWXKYELDFSHFRLFDENNDAAILILL 102

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	709
3jrn_A	176	AT1G72930 protein; TIR domain arabidopsis thaliana	100.0
3ozi_A	204	L6TR; plant TIR domain, plant protein; 2.30A {Linu	100.0
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	100.0
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	100.0
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	100.0
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	100.0
3h16_A	154	TIR protein; bacteria TIR domain, signaling protei	99.94
3ub2_A	146	TOLL/interleukin-1 receptor domain-containing ADA	99.87
1fyx_A	149	TOLL-like receptor 2; beta-alpha-beta fold, signal	99.81
2js7_A	160	Myeloid differentiation primary response protein M	99.81
2j67_A	178	TOLL like receptor 10; TIR, IL-1, TLR10, membrane,	99.8
1t3g_A	159	X-linked interleukin-1 receptor accessory protein-	99.79
2qen_A	350	Walker-type ATPase; unknown function; HET: ADP; 2.	99.77
2fna_A	357	Conserved hypothetical protein; structural genomic	99.74
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	99.68
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	99.56
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	99.53
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	99.48
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	99.47
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	99.45
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	99.27
2chg_A	226	Replication factor C small subunit; DNA-binding pr	99.16
1sxj_B	323	Activator 1 37 kDa subunit; clamp loader, processi	99.04
1hqc_A	324	RUVB; extended AAA-ATPase domain, complex with nuc	98.95
1iqp_A	327	RFCS; clamp loader, extended AAA-ATPase domain, co	98.91
2chq_A	319	Replication factor C small subunit; DNA-binding pr	98.75
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	98.72
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	98.58
3bos_A	242	Putative DNA replication factor; P-loop containing	98.57
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	98.55
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	98.54
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	98.54
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	98.47
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	98.46
1sxj_A	516	Activator 1 95 kDa subunit; clamp loader, processi	98.43
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	98.43
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	98.42
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	98.4
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	98.37
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	98.33
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	98.32
3pvs_A	447	Replication-associated recombination protein A; ma	98.32
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	98.28
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	98.26
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	98.24
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	98.22
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	98.21
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	98.21
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	98.18
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	98.17
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	98.16
1a5t_A	334	Delta prime, HOLB; zinc finger, DNA replication; 2	98.11
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	98.11
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	98.03
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	98.02
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	97.99
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	97.96
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	97.88
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.88
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	97.86
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	97.83
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.81
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	97.73
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.73
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	97.72
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.71
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	97.69
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.67
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.66
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.66
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.65
2gno_A	305	DNA polymerase III, gamma subunit-related protein;	97.65
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	97.63
1ojl_A	304	Transcriptional regulatory protein ZRAR; response	97.59
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	97.54
2c9o_A	456	RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-	97.51
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	97.49
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.47
3co5_A	143	Putative two-component system transcriptional RES	97.37
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	97.29
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.22
3pxi_A	758	Negative regulator of genetic competence CLPC/MEC;	97.19
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	97.15
1eiw_A	111	Hypothetical protein MTH538; CHEY-like fold, flavo	97.12
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.1
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.95
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.94
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.9
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	96.87
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.56
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.5
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.46
2qgz_A	308	Helicase loader, putative primosome component; str	96.37
2cvh_A	220	DNA repair and recombination protein RADB; filamen	96.04
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.02
1g5t_A	196	COB(I)alamin adenosyltransferase; P-loop protein,	95.84
1jr3_D	343	DNA polymerase III, delta subunit; processivity, p	95.75
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	95.64
2vhj_A	331	Ntpase P4, P4; non- hydrolysable ATP analogue, hyd	95.57
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	95.48
2r44_A	331	Uncharacterized protein; putative ATPase, structur	95.41
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	95.38
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.35
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.33
2eyu_A	261	Twitching motility protein PILT; pilus retraction	95.31
3hws_A	363	ATP-dependent CLP protease ATP-binding subunit CL;	95.23
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	95.23
2b8t_A	223	Thymidine kinase; deoxyribonucleoside kinase, zinc	95.17
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	95.04
1v5w_A	343	DMC1, meiotic recombination protein DMC1/LIM15 hom	94.95
1g8p_A	350	Magnesium-chelatase 38 kDa subunit; parallel beta	94.89
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	94.74
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	94.73
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	94.72
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	94.67
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	94.66
3nbx_X	500	ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structu	94.65
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	94.62
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	94.62
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	94.56
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	94.55
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	94.55
2z43_A	324	DNA repair and recombination protein RADA; archaea	94.53
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	94.51
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	94.45
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	94.44
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	94.43
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	94.43
3bh0_A	315	DNAB-like replicative helicase; ATPase, replicatio	94.4
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	94.3
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	94.28
2ewv_A	372	Twitching motility protein PILT; pilus retraction	94.21
3hyn_A	189	Putative signal transduction protein; DUF1863 fami	94.2
2q6t_A	444	DNAB replication FORK helicase; hydrolase; 2.90A {	94.18
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	94.18
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	94.17
2xxa_A	433	Signal recognition particle protein; protein trans	94.12
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.09
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	94.08
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.08
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	94.08
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	94.06
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	94.05
3ice_A	422	Transcription termination factor RHO; transcriptio	94.04
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	93.92
2vli_A	183	Antibiotic resistance protein; transferase, tunica	93.88
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	93.87
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	93.86
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	93.86
1tue_A	212	Replication protein E1; helicase, replication, E1E	93.85
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	93.84
1sky_E	473	F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alp	93.84
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	93.83
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	93.83
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	93.82
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	93.82
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	93.81
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	93.78
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	93.76
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	93.74
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	93.73
1via_A	175	Shikimate kinase; structural genomics, transferase	93.72
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	93.7
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	93.69
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	93.68
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	93.67
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	93.66
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	93.63
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	93.6
2r6a_A	454	DNAB helicase, replicative helicase; replication,	93.59
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	93.57
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	93.55
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	93.55
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	93.51
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	93.49
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	93.48
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	93.46
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	93.4
2zts_A	251	Putative uncharacterized protein PH0186; KAIC like	93.39
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	93.38
2r2a_A	199	Uncharacterized protein; zonular occludens toxin,	93.34
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	93.34
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	93.31
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	93.31
3upu_A	459	ATP-dependent DNA helicase DDA; RECA-like domain,	93.28
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	93.27
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	93.27
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	93.26
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	93.26
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	93.21
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	93.21
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	93.21
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	93.2
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	93.2
4a1f_A	338	DNAB helicase, replicative DNA helicase; hydrolase	93.19
3bgw_A	444	DNAB-like replicative helicase; ATPase, replicatio	93.07
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	93.06
4a74_A	231	DNA repair and recombination protein RADA; hydrola	92.97
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	92.97
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	92.97
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	92.96
2zr9_A	349	Protein RECA, recombinase A; recombination, RECA m	92.95
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	92.95
1u94_A	356	RECA protein, recombinase A; homologous recombinat	92.93
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	92.92
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	92.91
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	92.82
3fwy_A	314	Light-independent protochlorophyllide reductase I	92.81
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	92.8
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	92.76
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	92.74
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	92.73
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	92.72
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	92.7
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	92.65
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	92.57
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	92.51
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	92.51
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	92.46
2hf9_A	226	Probable hydrogenase nickel incorporation protein	92.46
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	92.45
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	92.4
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	92.36
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	92.34
3io5_A	333	Recombination and repair protein; storage dimer, i	92.28
2ck3_D	482	ATP synthase subunit beta\, mitochondrial; hydrola	92.27
1g41_A	444	Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dep	92.26
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	92.23
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	92.19
3k1j_A	604	LON protease, ATP-dependent protease LON; ATP-bind	92.05
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	92.05
1q57_A	503	DNA primase/helicase; dntpase, DNA replication, tr	92.03
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	92.0
3l0o_A	427	Transcription termination factor RHO; helicase, RH	92.0
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	91.99
1u0j_A	267	DNA replication protein; AAA+ protein, P-loop atpa	91.91
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	91.85
3e1s_A	574	Exodeoxyribonuclease V, subunit RECD; alpha and be	91.8
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	91.79
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	91.77
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	91.76
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	91.76
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	91.73
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	91.71
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	91.7
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	91.67
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	91.65
1xp8_A	366	RECA protein, recombinase A; recombination, radior	91.62
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	91.52
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	91.52
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	91.45
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	91.4
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	91.35
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	91.34
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	91.29
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	91.27
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	91.25
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	91.22
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	91.15
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	91.07
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	90.98
1fx0_B	498	ATP synthase beta chain; latent ATPase, thermal st	90.97
2r8r_A	228	Sensor protein; KDPD, PFAM02702, MCSG, structural	90.97
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	90.82
3end_A	307	Light-independent protochlorophyllide reductase ir	90.8
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	90.77
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	90.69
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	90.68
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	90.66
2orw_A	184	Thymidine kinase; TMTK, TP4A, transferase; HET: 4T	90.58
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	90.49
1g8f_A	511	Sulfate adenylyltransferase; alpha-beta protein, b	90.47
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	90.4
1cp2_A	269	CP2, nitrogenase iron protein; oxidoreductase; 1.9	90.38
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	90.29
2og2_A	359	Putative signal recognition particle receptor; nuc	90.26
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	90.25
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	90.21
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	90.2
2afh_E	289	Nitrogenase iron protein 1; nitrogen fixation, iro	90.16
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	90.03
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	90.03
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	90.02
3cmw_A	1706	Protein RECA, recombinase A; homologous recombinat	89.85
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	89.84
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	89.81
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	89.78
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	89.69
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	89.54
2i1q_A	322	DNA repair and recombination protein RADA; ATPase,	89.51
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	89.49
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	89.45
4edh_A	213	DTMP kinase, thymidylate kinase; structural genomi	89.39
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	89.38
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	89.33
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	89.15
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	89.09
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	89.06
4hlc_A	205	DTMP kinase, thymidylate kinase; TMK, MRSA, pipiri	89.05
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	88.99
2axn_A	520	6-phosphofructo-2-kinase/fructose-2,6- biphosphata	88.93
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	88.9
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	88.66
2wji_A	165	Ferrous iron transport protein B homolog; membrane	88.66
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	88.65
2j9r_A	214	Thymidine kinase; TK1, DNK, lasso, transferase, AT	88.54
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	88.49
1b0u_A	262	Histidine permease; ABC transporter, transport pro	88.49
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	88.45
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	88.45
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	88.39
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	88.35
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	88.28
3zq6_A	324	Putative arsenical pump-driving ATPase; tail-ancho	88.26
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	88.2
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	88.18
3fdi_A	201	Uncharacterized protein; cytidylate kinase like pr	88.16
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	88.16
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	88.09
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	88.09
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	88.02
3cmu_A	2050	Protein RECA, recombinase A; homologous recombinat	88.01
3ug7_A	349	Arsenical pump-driving ATPase; tail-anchored, memb	87.95
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	87.86
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	87.86
1ji0_A	240	ABC transporter; ATP binding protein, structural g	87.84
3hjn_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	87.82
2ghi_A	260	Transport protein; multidrug resistance protein, M	87.77
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	87.74
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	87.72
1m8p_A	573	Sulfate adenylyltransferase; rossmann fold, phosph	87.71
1g6h_A	257	High-affinity branched-chain amino acid transport	87.68
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	87.66
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	87.63
4tmk_A	213	Protein (thymidylate kinase); ATP:DTMP phosphotran	87.62
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	87.61
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	87.59
2h92_A	219	Cytidylate kinase; rossmann fold, transferase; HET	87.58
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	87.57
2gks_A	546	Bifunctional SAT/APS kinase; transferase, sulfuryl	87.55
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	87.54
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	87.53
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	87.53
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	87.51
4akg_A	2695	Glutathione S-transferase class-MU 26 kDa isozyme	87.43
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	87.42
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	87.41
1sgw_A	214	Putative ABC transporter; structural genomics, P p	87.36
2ged_A	193	SR-beta, signal recognition particle receptor beta	87.35
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	87.29
2fz4_A	237	DNA repair protein RAD25; RECA-like domain, DNA da	87.28
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	87.2
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	87.18
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	87.18
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	87.15
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	87.08
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	87.07
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	87.04
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	87.03
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	86.97
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	86.95
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	86.94
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	86.93
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	86.93
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	86.91
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	86.82
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	86.77
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	86.76
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	86.76
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	86.74
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	86.69
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	86.65
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	86.65
3f9v_A	595	Minichromosome maintenance protein MCM; replicativ	86.64
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	86.63
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	86.61
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	86.6
3fkq_A	373	NTRC-like two-domain protein; RER070207001320, str	86.55
3vkw_A	446	Replicase large subunit; alpha/beta domain, helica	86.49
1nrj_B	218	SR-beta, signal recognition particle receptor beta	86.43
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	86.42
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	86.42
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	86.42
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	86.41
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	86.35
3kta_A	182	Chromosome segregation protein SMC; structural mai	86.32
3io3_A	348	DEHA2D07832P; chaperone, membrane traffic, ATPase;	86.3
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	86.2
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	86.14
3iqw_A	334	Tail-anchored protein targeting factor GET3; ATPas	86.1
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	86.05
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	86.02
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	86.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	85.96
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	85.92
1x6v_B	630	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	85.9
3vr4_D	465	V-type sodium ATPase subunit D; V-ATPase, rotary m	85.89
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	85.84
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	85.82
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	85.78
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	85.77
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	85.77
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	85.71
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	85.68
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	85.59
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	85.56
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	85.54
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	85.49
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	85.42
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	85.38
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	85.34
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	85.29
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	85.27
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	85.25
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	85.25
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	85.13
3hdt_A	223	Putative kinase; structura genomics, PSI-2, protei	85.11
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	85.09
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	85.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	84.98
3tmk_A	216	Thymidylate kinase; phosphotransferase; HET: T5A;	84.98
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	84.95
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	84.95
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	84.94
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	84.91
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	84.86
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	84.82
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	84.82
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	84.78
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	84.78
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	84.77
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	84.73
3ez2_A	398	Plasmid partition protein A; type IA, DNA binding,	84.71
3cio_A	299	ETK, tyrosine-protein kinase ETK; WZC, escherichia	84.71
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	84.65
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	84.64
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	84.63
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	84.57
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	84.5
2oze_A	298	ORF delta'; para, walker type atpases, DNA segrega	84.46
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	84.41
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	84.33
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	84.3
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	84.29
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	84.25
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	84.24
2fh5_B	214	SR-beta, signal recognition particle receptor beta	84.16
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	84.13
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	84.09
2c61_A	469	A-type ATP synthase non-catalytic subunit B; hydro	84.04
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	84.03
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	84.01
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	83.96
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	83.89
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	83.85
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	83.81
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	83.81
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	83.68
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	83.68
3bfv_A	271	CAPA1, CAPB2, membrane protein CAPA1, protein tyro	83.67
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	83.62
3llu_A	196	RAS-related GTP-binding protein C; structural geno	83.55
1byi_A	224	Dethiobiotin synthase; biotin synthesis, cyclo-lig	83.52
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	83.47
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	83.42
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	83.42
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	83.41
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	83.32
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	83.21
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	83.16
3gqb_B	464	V-type ATP synthase beta chain; A3B3, V-ATPase, AT	83.14
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	83.09
1p9r_A	418	General secretion pathway protein E; bacterial typ	83.08
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	83.0
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	82.96
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	82.84
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	82.81
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	82.79
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	82.79
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	82.78
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	82.77
2woo_A	329	ATPase GET3; tail-anchored, membrane protein, targ	82.76
2ck3_A	510	ATP synthase subunit alpha\, mitochondrial; hydrol	82.74
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	82.72
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	82.7
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	82.67
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	82.64
2qe7_A	502	ATP synthase subunit alpha; blockage of ATP hydrol	82.57
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	82.51
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	82.48
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	82.43
3ch4_B	202	Pmkase, phosphomevalonate kinase; parallel beta-sh	82.43
1ihu_A	589	Arsenical pump-driving ATPase; aluminum fluoride,	82.41
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	82.37
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	82.35
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	82.28
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	82.27
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	82.15
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	82.12
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	81.97

>3jrn_A AT1G72930 protein; TIR domain arabidopsis thaliana, plant protein; 2.00A {Arabidopsis thaliana}

Probab=100.00  E-value=2e-43  Score=335.80  Aligned_cols=166  Identities=49%  Similarity=0.779  Sum_probs=143.9

Q ss_pred             CCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELV   81 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~   81 (709)
                      +++|||||||+|+|++.+|+++|+++|+++||++|+|+ ++++|+.|.++|.+||++|+++|+|||+||++|+||++||.
T Consensus         6 ~~~yDVFiSfrg~D~r~~Fv~~L~~~L~~~gi~~f~D~~~l~~G~~i~~~l~~aIe~Sri~IvV~S~ny~~S~WCl~EL~   85 (176)
T 3jrn_A            6 ATKYDVFLSFRGHDTRHNFISFLYKELVRRSIRTFKDDKELENGQRFSPELKSPIEVSRFAVVVVSENYAASSWCLDELV   85 (176)
T ss_dssp             -CCEEEEEEECHHHHTTTHHHHHHHHHHHTTCCEECCCC--------------CCTTEEEEEEEECTTTTTCHHHHHHHH
T ss_pred             CCCCeEEEECcCcccChHHHHHHHHHHHHCCCEEEEEcccccCCCchHHHHHHHHHhCCEEEEEecCCcCCChhHHHHHH
Confidence            57899999999999999999999999999999999998 99999999999999999999999999999999999999999


Q ss_pred             HHHHhhhhCCceeEeEEeecCCCcccccCCchhhhhhhhhhhhccchhHHHHHHHHHHHhhhccCCCCCCCCcchhhhHH
Q 005191           82 KILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKLVK  161 (709)
Q Consensus        82 ~~~~~~~~~~~~vlPvf~~v~p~~vr~~~g~~~~~~~~~~~~~~~~~~~~v~~w~~aL~~v~~~~g~~~~~~~~e~~~i~  161 (709)
                      +|++|.+..++.|+||||+|+|++||+|+|+|+++|.+|+.+..   ++++++||+||.++++++||++.  .+|+++|+
T Consensus        86 ~i~~~~~~~~~~ViPIfy~V~ps~Vr~q~g~fg~af~~~~~~~~---~~~~~~Wr~AL~~va~~~G~~~~--~~e~~~i~  160 (176)
T 3jrn_A           86 TIMDFEKKGSITVMPIFYGVEPNHVRWQTGVLAEQFKKHASRED---PEKVLKWRQALTNFAQLSGDCSG--DDDSKLVD  160 (176)
T ss_dssp             HHHHHHHTTSCEEEEEECSSCHHHHHHTCTHHHHHHHHHHTTSC---HHHHHHHHHHHHHHTTSCCEECC--SCHHHHHH
T ss_pred             HHHhhhccCCCEEEEEEecCCHHHhhhccCcHHHHHHHHHhccC---HHHHHHHHHHHHHHhcccceecC--CCHHHHHH
Confidence            99999988999999999999999999999999999999998833   38999999999999999999984  67999999


Q ss_pred             HHHHHHHhhhhc
Q 005191          162 EITADILEKLEK  173 (709)
Q Consensus       162 ~i~~~i~~~l~~  173 (709)
                      +|+.+|+++|++
T Consensus       161 ~Iv~~v~~~l~~  172 (176)
T 3jrn_A          161 KIANEISNKKTI  172 (176)
T ss_dssp             HHHHHHHTTCC-
T ss_pred             HHHHHHHHHhcC
Confidence            999999999987

>3ozi_A L6TR; plant TIR domain, plant protein; 2.30A {Linum usitatissimum}

Probab=100.00  E-value=3e-43  Score=339.53  Aligned_cols=169  Identities=43%  Similarity=0.804  Sum_probs=160.4

Q ss_pred             CCCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHH
Q 005191            2 ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDEL   80 (709)
Q Consensus         2 ~~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El   80 (709)
                      +.++|||||||+|+|++++|+++|+++|+++||++|+|+ ++++|+.|.++|.+||++|+++|+|||+||++|.||++||
T Consensus        32 ~~~~yDVFISfrg~D~r~~Fv~~L~~aL~~~GI~~f~D~~el~~G~~I~~~l~~aIe~Sri~IvV~S~nYa~S~WCl~EL  111 (204)
T 3ozi_A           32 PSVEYEVFLSFRGPDTREQFTDFLYQSLRRYKIHTFRDDDELLKGKEIGPNLLRAIDQSKIYVPIISSGYADSKWCLMEL  111 (204)
T ss_dssp             --CCCCEEEEECHHHHTTTHHHHHHHHHHHTTCCEEEEETTTCCGGGTTTTHHHHHHHCSEEEEEECTTGGGCHHHHHHH
T ss_pred             CCcCCeEEEeccccCCCHHHHHHHHHHHHHCCCcEEEeCCccCCCCchHHHHHHHHHhCcEeeEEEEcccccCcHHHHHH
Confidence            468999999999999999999999999999999999998 9999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhh-CCceeEeEEeecCCCcccccCCchhhhhhhhhhhhccchhHHHHHHHHHHHhhhccCCCCCCCCcchhhh
Q 005191           81 VKILKCHKK-NIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDKQFNKKMPEKVQKWRAVLTEASNLSGWDSNTTRPDAKL  159 (709)
Q Consensus        81 ~~~~~~~~~-~~~~vlPvf~~v~p~~vr~~~g~~~~~~~~~~~~~~~~~~~~v~~w~~aL~~v~~~~g~~~~~~~~e~~~  159 (709)
                      .+|++|.+. .++.|+||||+|+|++||+|+|+|+++|.+|+.++..   +++++||.||.++++++||++..+.++.++
T Consensus       112 ~~I~e~~~~~~~~~ViPIFY~VdPs~Vr~q~g~fg~af~~~~~~~~~---~~v~~Wr~AL~~va~lsG~~~~~~~~e~~~  188 (204)
T 3ozi_A          112 AEIVRRQEEDPRRIILPIFYMVDPSDVRHQTGCYKKAFRKHANKFDG---QTIQNWKDALKKVGDLKGWHIGKNDKQGAI  188 (204)
T ss_dssp             HHHHHHHHHCTTSEECCEEESSCHHHHHHTCTTHHHHHHHHTTTSCH---HHHHHHHHHHHHHHTSCBEEECTTSCHHHH
T ss_pred             HHHHHHHHhcCCeeeEEEEeecCHHHHHhccccHHHHHHHHHHhhCH---HHHHHHHHHHHHHhccCceecCCCCCHHHH
Confidence            999999865 5789999999999999999999999999999998865   789999999999999999999988889999


Q ss_pred             HHHHHHHHHhhhhc
Q 005191          160 VKEITADILEKLEK  173 (709)
Q Consensus       160 i~~i~~~i~~~l~~  173 (709)
                      |++|+.+|+++|+.
T Consensus       189 i~~Iv~di~~kl~~  202 (204)
T 3ozi_A          189 ADKVSADIWSHISK  202 (204)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999999875

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*

Probab=100.00  E-value=1.4e-41  Score=388.18  Aligned_cols=298  Identities=18%  Similarity=0.165  Sum_probs=236.8

Q ss_pred             cccchhhhHHHhhhhcc-CCCceEEEEEccCCCchhHHHHHHHH----HhhhcccceEEEeeecccccccCCHHHHHHHH
Q 005191          185 IGLESHVEQVRSLLAIG-LPDVRLVGIWGMGGIGKTTIAGVVFN----QFSQKFEGKYFMANVREESEKCGGLVHLRNQV  259 (709)
Q Consensus       185 vGR~~el~~L~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~----~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~l  259 (709)
                      +||+.++++|.++|..+ .++.++|+|+||||+||||||+++|+    ++..+|+.++|+. ++....  .+...++..+
T Consensus       131 ~GR~~~~~~l~~~L~~~~~~~~~vv~I~G~gGvGKTtLA~~v~~~~~~~~~~~F~~~~wv~-vs~~~~--~~~~~~~~~i  207 (549)
T 2a5y_B          131 YIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLK-DSGTAP--KSTFDLFTDI  207 (549)
T ss_dssp             CCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEE-CCCCST--THHHHHHHHH
T ss_pred             CCchHHHHHHHHHHhcccCCCceEEEEEcCCCCCHHHHHHHHHHhhhHHHhccCCcEEEEE-ECCCCC--CCHHHHHHHH
Confidence            49999999999999765 34589999999999999999999996    6888999999995 433221  3577899999


Q ss_pred             HHHhcCCCC--CCCCCC------hhHHHHHHHccC-ceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhhhhc
Q 005191          260 LSKLLGENF--DIGTPK------IPQYIRDRLQRM-KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERY  330 (709)
Q Consensus       260 l~~l~~~~~--~~~~~~------~~~~l~~~L~~k-r~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~~~~  330 (709)
                      +.+++....  ...+.+      +...+++.|.++ |+||||||||+.+++ .+..     .+||+||||||+..++..+
T Consensus       208 l~~l~~~~~~~~~~~~~~~~~~~l~~~l~~~L~~~kr~LlVLDdv~~~~~~-~~~~-----~~gs~ilvTTR~~~v~~~~  281 (549)
T 2a5y_B          208 LLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI-RWAQ-----ELRLRCLVTTRDVEISNAA  281 (549)
T ss_dssp             HHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHH-HHHH-----HTTCEEEEEESBGGGGGGC
T ss_pred             HHHHhcCcccccccccccccHHHHHHHHHHHHcCCCcEEEEEECCCCchhh-cccc-----cCCCEEEEEcCCHHHHHHc
Confidence            999865421  111111      478899999996 999999999998866 2221     2799999999999998877


Q ss_pred             C-cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHH-hhcCC
Q 005191          331 G-THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNN-LKRIS  408 (709)
Q Consensus       331 ~-~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~-L~~~~  408 (709)
                      + ...+|+|++|+.++|++||.++++.... ++...+++.+|+++|+|+||||+++|+.|+.++. +|...+.. +....
T Consensus       282 ~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~I~~~c~GlPLAl~~~g~~l~~~~w-~~~~~l~~~l~~~~  359 (549)
T 2a5y_B          282 SQTCEFIEVTSLEIDECYDFLEAYGMPMPV-GEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTF-EKMAQLNNKLESRG  359 (549)
T ss_dssp             CSCEEEEECCCCCHHHHHHHHHHTSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSH-HHHHHHHHHHHHHC
T ss_pred             CCCCeEEECCCCCHHHHHHHHHHHhcCCCC-chhHHHHHHHHHHHhCCChHHHHHHHHHhccchH-HHHHHhHHHhhccc
Confidence            5 4478999999999999999999876533 3577889999999999999999999999987642 23232322 33324


Q ss_pred             CCcHHhHHHHhhcCCCHHHHHHHH-----------hccccccCcchhHHHHHHhcC--Cch-----------HHHHHHHH
Q 005191          409 DSDIYGVLKIGYDELSWEEKNLFL-----------DIACFFNGDDREHVMWILNDD--YYS-----------VQYGLNVL  464 (709)
Q Consensus       409 ~~~i~~~L~~Sy~~L~~~~k~~fl-----------~lA~Fp~~~~~~~l~~l~~~~--g~~-----------~~~~l~~L  464 (709)
                      ..++..++..||+.||++.|.||+           |||+||++++.+  +.+|.++  |+.           +..+|++|
T Consensus       360 ~~~i~~~l~~Sy~~L~~~lk~~f~~Ls~~er~l~~~ls~fp~~~~i~--i~~w~a~~~G~i~~~~~~~~~~~~~~~l~~L  437 (549)
T 2a5y_B          360 LVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIP--VKLWSCVIPVDICSNEEEQLDDEVADRLKRL  437 (549)
T ss_dssp             SSTTCCCSSSSSSSHHHHHHHHHHTSCHHHHHHTTGGGSSCTTCCEE--HHHHHHHSCC-------CCCTHHHHHHHHHT
T ss_pred             HHHHHHHHhcccccccHHHHHHHhccchhhhhHhhheeeeCCCCeee--eeeeeeeccceeccCCCCCCHHHHHHHHHHH
Confidence            567888999999999999999999           999999998766  7788887  443           23489999


Q ss_pred             HhCCCeEEe----CCEEEEcHHHHHHHHHHHhhhc
Q 005191          465 VNKSLIKIS----YNKLQMHDLLQEMGREIVCQEF  495 (709)
Q Consensus       465 ~~rsLI~~~----~~~~~mHdlvr~~a~~~~~~e~  495 (709)
                      +++||++..    ..+|+|||+||+||++++.+++
T Consensus       438 ~~rsLl~~~~~~~~~~~~mHdlv~~~a~~~~~~~~  472 (549)
T 2a5y_B          438 SKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQT  472 (549)
T ss_dssp             TTBSSCSEEECSSSCEEECCHHHHHHHHTTSCTHH
T ss_pred             HHcCCeeEecCCCceEEEeChHHHHHHHHHHHHHH
Confidence            999999976    2479999999999999887765

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A*

Probab=100.00  E-value=5.1e-37  Score=382.87  Aligned_cols=307  Identities=20%  Similarity=0.258  Sum_probs=246.9

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH---hhhcccceEEEeeecccccccCCH
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ---FSQKFEGKYFMANVREESEKCGGL  252 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~---~~~~f~~~~~v~~~~~~~~~~~~l  252 (709)
                      ..|..+..||||++++++|.++|...+++.++|+|+||||+||||||++++++   ...+|...+||..+.....  ...
T Consensus       118 ~~p~~~~~~vgR~~~~~~l~~~l~~~~~~~~~v~i~G~gG~GKTtLa~~~~~~~~~~~~~~~~~~~~v~~~~~~~--~~~  195 (1249)
T 3sfz_A          118 GVPQRPVIFVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDK--SGL  195 (1249)
T ss_dssp             TCCCCCSSCCCCHHHHHHHHHHHHTTTTSCEEEEEECSTTSSHHHHHHHHTCCHHHHTTTSTTCEEEEECCSCCH--HHH
T ss_pred             CCCCCCceeccHHHHHHHHHHHHhhccCCCCEEEEEeCCCCCHHHHHHHHhcChhHHHhhCCCeEEEEEECCcCc--hHH
Confidence            45667788999999999999999766667899999999999999999999986   3556877775555544322  233


Q ss_pred             HHHHHHHHHHhcCCCCCCCC--C--C-hhHHHHHHHccC--ceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          253 VHLRNQVLSKLLGENFDIGT--P--K-IPQYIRDRLQRM--KVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~--~--~-~~~~l~~~L~~k--r~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      ...+..++..+.........  .  + +...++..+.++  |+||||||||+..+++.+       ++|++||||||++.
T Consensus       196 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LlvlDd~~~~~~~~~~-------~~~~~ilvTtR~~~  268 (1249)
T 3sfz_A          196 LMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAF-------DNQCQILLTTRDKS  268 (1249)
T ss_dssp             HHHHHHHHHHHTTTCTTCSSCCSSHHHHHHHHHHHTSSSSCSCEEEEESCCCHHHHTTT-------CSSCEEEEEESSTT
T ss_pred             HHHHHHHHHHhhhhcccccCCCCCHHHHHHHHHHHHhccCCCEEEEEecCCCHHHHHhh-------cCCCEEEEEcCCHH
Confidence            44455666666433221111  1  1 556667777666  999999999998877664       67899999999998


Q ss_pred             hhhh-cCcceEEEecC-CChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHH
Q 005191          326 ILER-YGTHRIYEVEG-LNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNN  403 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~-L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~  403 (709)
                      ++.. ......+++++ |+.+||++||...++..   .+...+.+.+|+++|+|+||||+++|++|+.++ .+|...++.
T Consensus       269 ~~~~~~~~~~~~~~~~~l~~~~a~~l~~~~~~~~---~~~~~~~~~~i~~~~~glPLal~~~~~~l~~~~-~~~~~~l~~  344 (1249)
T 3sfz_A          269 VTDSVMGPKHVVPVESGLGREKGLEILSLFVNMK---KEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQ  344 (1249)
T ss_dssp             TTTTCCSCBCCEECCSSCCHHHHHHHHHHHHTSC---STTCCTHHHHHHHHTTTCHHHHHHHHHHHHHSS-SCHHHHHHH
T ss_pred             HHHhhcCCceEEEecCCCCHHHHHHHHHHhhCCC---hhhCcHHHHHHHHHhCCCHHHHHHHHHHhhcCh-hHHHHHHHH
Confidence            8854 44567889996 99999999999887432   334556799999999999999999999998766 579999888


Q ss_pred             hhcCCC-----------CcHHhHHHHhhcCCCHHHHHHHHhccccccCc--chhHHHHHHhcCCchHHHHHHHHHhCCCe
Q 005191          404 LKRISD-----------SDIYGVLKIGYDELSWEEKNLFLDIACFFNGD--DREHVMWILNDDYYSVQYGLNVLVNKSLI  470 (709)
Q Consensus       404 L~~~~~-----------~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~--~~~~l~~l~~~~g~~~~~~l~~L~~rsLI  470 (709)
                      +.....           ..+..+|..||+.||+++|.||++||+||+++  +.+.++.+|.+++..++.+|++|+++|||
T Consensus       345 l~~~~~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~l~~f~~~~~i~~~~~~~~~~~~~~~~~~~l~~L~~~sl~  424 (1249)
T 3sfz_A          345 LQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDILQEFVNKSLL  424 (1249)
T ss_dssp             HHSCCCCCSSCTTCTTHHHHHHHHHHHHHTSCTTTHHHHHHGGGSCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTTSC
T ss_pred             HhhhhhhhcccccccchHHHHHHHHHHHHhCCHHHHHHHHHhCccCCCCeeCHHHHHHHhCCCHHHHHHHHHHHHhccce
Confidence            765431           34889999999999999999999999999885  78999999999999999999999999999


Q ss_pred             EEe-CC---EEEEcHHHHHHHHHHHhhhc
Q 005191          471 KIS-YN---KLQMHDLLQEMGREIVCQEF  495 (709)
Q Consensus       471 ~~~-~~---~~~mHdlvr~~a~~~~~~e~  495 (709)
                      +.. ++   +|+||++||+|+++.+.++.
T Consensus       425 ~~~~~~~~~~~~~h~l~~~~~~~~~~~~~  453 (1249)
T 3sfz_A          425 FCNRNGKSFCYYLHDLQVDFLTEKNRSQL  453 (1249)
T ss_dssp             EEEESSSSEEEECCHHHHHHHHHHTGGGH
T ss_pred             EEecCCCceEEEecHHHHHHHHhhhhHHH
Confidence            977 33   49999999999999877663

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens}

Probab=100.00  E-value=4.1e-35  Score=338.30  Aligned_cols=301  Identities=20%  Similarity=0.252  Sum_probs=231.1

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh---hhcccc-eEEEeeecccccccCC
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF---SQKFEG-KYFMANVREESEKCGG  251 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~---~~~f~~-~~~v~~~~~~~~~~~~  251 (709)
                      ..|..+..||||+.++++|.++|...+++.++|+|+||||+||||||.+++++.   ..+|+. ++|+. +.....  ..
T Consensus       118 ~~P~~~~~~vGR~~~l~~L~~~L~~~~~~~~~v~I~G~~GiGKTtLa~~~~~~~~~~~~~f~~~v~wv~-~~~~~~--~~  194 (591)
T 1z6t_A          118 GVPQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVS-VGKQDK--SG  194 (591)
T ss_dssp             TCCCCCSSCCCCHHHHHHHHHHHTTSTTSCEEEEEECCTTSSHHHHHHHHHCCHHHHHHHCTTCEEEEE-EESCCH--HH
T ss_pred             CCCCCCCeecccHHHHHHHHHHHhcccCCCceEEEEcCCCCCHHHHHHHHHhchhHHHhhCCCceEEEE-CCCCch--HH
Confidence            456677889999999999999998655678999999999999999999999864   677965 55554 433211  11


Q ss_pred             HHHHHHHHHHHhcCCCC--CCCCC--C-hhHHHHHHHcc--CceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          252 LVHLRNQVLSKLLGENF--DIGTP--K-IPQYIRDRLQR--MKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       252 l~~l~~~ll~~l~~~~~--~~~~~--~-~~~~l~~~L~~--kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      +......+...++....  .....  + ....++..+.+  +++||||||+|+...++.+       +++++||||||+.
T Consensus       195 ~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~LLVLDdv~~~~~l~~l-------~~~~~ilvTsR~~  267 (591)
T 1z6t_A          195 LLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAF-------DSQCQILLTTRDK  267 (591)
T ss_dssp             HHHHHHHHHHHHCSSCCSCSSCCCSHHHHHHHHHHHHHHTCTTCEEEEEEECCHHHHHTT-------CSSCEEEEEESCG
T ss_pred             HHHHHHHHHHHhccccccccCCCCCHHHHHHHHHHHHccCCCCeEEEEeCCCCHHHHHHh-------cCCCeEEEECCCc
Confidence            22222333344432111  11111  1 55667777766  7899999999997776543       5789999999999


Q ss_pred             hhhhhcCcceEEEe---cCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHH
Q 005191          325 TILERYGTHRIYEV---EGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTL  401 (709)
Q Consensus       325 ~v~~~~~~~~~~~L---~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L  401 (709)
                      .++..+. ...+++   ++|+.+||++||...++..   .....+.+.+|+++|+|+||||+++|+.++... .+|...+
T Consensus       268 ~~~~~~~-~~~~~v~~l~~L~~~ea~~L~~~~~~~~---~~~~~~~~~~i~~~~~G~PLal~~~a~~l~~~~-~~w~~~l  342 (591)
T 1z6t_A          268 SVTDSVM-GPKYVVPVESSLGKEKGLEILSLFVNMK---KADLPEQAHSIIKECKGSPLVVSLIGALLRDFP-NRWEYYL  342 (591)
T ss_dssp             GGGTTCC-SCEEEEECCSSCCHHHHHHHHHHHHTSC---GGGSCTHHHHHHHHHTTCHHHHHHHHHHHHHST-TCHHHHH
T ss_pred             HHHHhcC-CCceEeecCCCCCHHHHHHHHHHHhCCC---cccccHHHHHHHHHhCCCcHHHHHHHHHHhcCc-hhHHHHH
Confidence            8776543 334555   5899999999999988532   223346789999999999999999999998753 4798888


Q ss_pred             HHhhcCC-----------CCcHHhHHHHhhcCCCHHHHHHHHhccccccC--cchhHHHHHHhcCCchHHHHHHHHHhCC
Q 005191          402 NNLKRIS-----------DSDIYGVLKIGYDELSWEEKNLFLDIACFFNG--DDREHVMWILNDDYYSVQYGLNVLVNKS  468 (709)
Q Consensus       402 ~~L~~~~-----------~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~--~~~~~l~~l~~~~g~~~~~~l~~L~~rs  468 (709)
                      +.+....           ...+..++..||+.||++.|.||+++|+||++  ++.+.+..+|..++..+..++++|+++|
T Consensus       343 ~~l~~~~~~~~~~~~~~~~~~l~~~l~~s~~~L~~~~~~~l~~la~f~~~~~i~~~~l~~l~~~~~~~~~~~l~~L~~~~  422 (591)
T 1z6t_A          343 KQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVNKS  422 (591)
T ss_dssp             HHHHSCCCCCSSCCCSSCCHHHHHHHHHHHHTSCTTTHHHHHHGGGCCTTCCEEHHHHHHHHTCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHhHHHHhhhccccchHHHHHHHHHHHHhCCHHHHHHHHHccccCCCCccCHHHHHHHhccCHHHHHHHHHHHHhCc
Confidence            8876432           13688999999999999999999999999986  4778899999988778899999999999


Q ss_pred             CeEEe--C--CEEEEcHHHHHHHHHHH
Q 005191          469 LIKIS--Y--NKLQMHDLLQEMGREIV  491 (709)
Q Consensus       469 LI~~~--~--~~~~mHdlvr~~a~~~~  491 (709)
                      ||+..  +  ..|+||+++|+++++..
T Consensus       423 Ll~~~~~~~~~~~~~H~lv~~~~~~~~  449 (591)
T 1z6t_A          423 LLFCDRNGKSFRYYLHDLQVDFLTEKN  449 (591)
T ss_dssp             SSEEEEETTEEEEECCHHHHHHHHHHT
T ss_pred             CeEEecCCCccEEEEcHHHHHHHHhhh
Confidence            99866  2  26999999999999873

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A*

Probab=100.00  E-value=9e-35  Score=338.29  Aligned_cols=278  Identities=17%  Similarity=0.141  Sum_probs=213.6

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHH--HhhhcccceEEEeeecccccccCCHHHHHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFN--QFSQKFEGKYFMANVREESEKCGGLVHLRNQV  259 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~--~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~l  259 (709)
                      +..|||+.++++|.++|... ++.++|+|+||||+||||||+++++  +++.+|+..++|..++..    .+...+...+
T Consensus       128 k~~VGRe~eLeeL~elL~~~-d~~RVV~IvGmGGIGKTTLAk~Vy~d~rV~~~Fd~gV~WVsVs~~----~d~~~IL~~L  202 (1221)
T 1vt4_I          128 KYNVSRLQPYLKLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNC----NSPETVLEML  202 (1221)
T ss_dssp             CSCCCCHHHHHHHHHHHHHC-CSSCEEEECCSTTSSHHHHHHHHHHHCHHHHHHSSCEEEEECCCS----SSHHHHHHHH
T ss_pred             CCCCCcHHHHHHHHHHHhcc-CCCeEEEEEcCCCccHHHHHHHHHHhhHHHHhCCCcEEEEEeCCC----CCHHHHHHHH
Confidence            44599999999999999753 3479999999999999999999997  478889985444445432    3455555555


Q ss_pred             HHHh---cCCCC-CCCC-------CC-hhHHHHHHH---ccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          260 LSKL---LGENF-DIGT-------PK-IPQYIRDRL---QRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       260 l~~l---~~~~~-~~~~-------~~-~~~~l~~~L---~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      +..+   ..... ....       .+ ....+++.|   .++|+||||||||+.++|+.+.       +||+||||||++
T Consensus       203 l~lL~~i~~~~~~~~d~~~~ip~~leeL~e~Lr~lL~~l~~KRvLLVLDDVwd~eqLe~f~-------pGSRILVTTRd~  275 (1221)
T 1vt4_I          203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN-------LSCKILLTTRFK  275 (1221)
T ss_dssp             HHHHHHHCSSSTTTSCCCSSHHHHHHHHHHHHHHHHHHSTTSSCEEEEESCCCHHHHHHHH-------SSCCEEEECSCS
T ss_pred             HHHHhhcCcccccccccccCCCCCHHHHHHHHHHHHHhhcCCCEEEEEeCcChHHHHHhhC-------CCeEEEEeccCh
Confidence            5543   11100 0000       01 345566655   5799999999999998888762       689999999999


Q ss_pred             hhhhhcCcceEEEec------CCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCC--Chhh
Q 005191          325 TILERYGTHRIYEVE------GLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRK--SKPD  396 (709)
Q Consensus       325 ~v~~~~~~~~~~~L~------~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~--~~~e  396 (709)
                      .++..+.....|.++      +|+.+||++||++.. +..     ..++..++   |+|+||||+++|+.|+++  +.++
T Consensus       276 ~Va~~l~g~~vy~LeL~d~dL~LS~eEA~eLF~~~~-g~~-----~eeL~~eI---CgGLPLALkLaGs~Lr~k~~s~ee  346 (1221)
T 1vt4_I          276 QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL-DCR-----PQDLPREV---LTTNPRRLSIIAESIRDGLATWDN  346 (1221)
T ss_dssp             HHHHHHHHHSSCEEEECSSSSCCCHHHHHHHHHHHH-CCC-----TTTHHHHH---CCCCHHHHHHHHHHHHHSCSSHHH
T ss_pred             HHHHhcCCCeEEEecCccccCCcCHHHHHHHHHHHc-CCC-----HHHHHHHH---hCCCHHHHHHHHHHHhCCCCCHHH
Confidence            887644443456666      999999999999884 322     12333443   999999999999999886  5677


Q ss_pred             HHHHHHHhhcCCCCcHHhHHHHhhcCCCHHH-HHHHHhccccccCc--chhHHHHHHhcCC-chHHHHHHHHHhCCCeEE
Q 005191          397 WVNTLNNLKRISDSDIYGVLKIGYDELSWEE-KNLFLDIACFFNGD--DREHVMWILNDDY-YSVQYGLNVLVNKSLIKI  472 (709)
Q Consensus       397 w~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~-k~~fl~lA~Fp~~~--~~~~l~~l~~~~g-~~~~~~l~~L~~rsLI~~  472 (709)
                      |...       ....+..+|..||+.||+++ |.||++||+||+++  +.+.+..+|.++| ..++.+|++|+++|||+.
T Consensus       347 W~~~-------~~~~I~aaLelSYd~Lp~eelK~cFL~LAIFPed~~I~~elLa~LW~aeGeedAe~~L~eLvdRSLLq~  419 (1221)
T 1vt4_I          347 WKHV-------NCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK  419 (1221)
T ss_dssp             HHHC-------SCHHHHHHHHHHHHHSCTTHHHHHHHHTTSSCTTSCEEHHHHHHHHCSSCSHHHHHHHHHHHTSSSSSB
T ss_pred             HhcC-------ChhHHHHHHHHHHHhCCHHHHHHHHHHHhCCCCCCCCCHHHHHHHhcCCCHHHHHHHHHHHHhhCCEEE
Confidence            8652       34679999999999999999 99999999999875  6678999999885 358889999999999998


Q ss_pred             e--CCEEEEcHHHHHHH
Q 005191          473 S--YNKLQMHDLLQEMG  487 (709)
Q Consensus       473 ~--~~~~~mHdlvr~~a  487 (709)
                      .  .++|+|||++++++
T Consensus       420 d~~~~rYrMHDLllELr  436 (1221)
T 1vt4_I          420 QPKESTISIPSIYLELK  436 (1221)
T ss_dssp             CSSSSEEBCCCHHHHHH
T ss_pred             eCCCCEEEehHHHHHHh
Confidence            6  56899999998843

>3h16_A TIR protein; bacteria TIR domain, signaling protein; 2.50A {Paracoccus denitrificans PD1222}

Probab=99.94  E-value=8.2e-28  Score=227.36  Aligned_cols=120  Identities=19%  Similarity=0.386  Sum_probs=112.1

Q ss_pred             CCCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHH
Q 005191            2 ASCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDEL   80 (709)
Q Consensus         2 ~~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El   80 (709)
                      +.++|||||||+++| +..|+.+|+.+|+++|+++|+|+ ++.+|+.+.++|.++|++|+++|+|+|++|++|.||+.||
T Consensus        17 ~~~~~dvFISy~~~D-~~~~~~~L~~~L~~~gi~v~~D~~~l~~G~~~~~~i~~ai~~s~~~i~v~S~~y~~S~wc~~El   95 (154)
T 3h16_A           17 SAPPHDIFISHAWED-KADFVEALAHTLRAAGAEVWYDDFSLRPGDSLRRSIDKGLGSSRFGIVVLSTHFFKKEWPQKEL   95 (154)
T ss_dssp             -CCSEEEEEEEEGGG-TTTTHHHHHHHHHHHTCCEECGGGEECTTCCHHHHHHHHHTSEEEEEEEEEHHHHTTCCCHHHH
T ss_pred             CCCCceEEEECcccC-hHHHHHHHHHHHHHCCCcEEEcHHhCCCccHHHHHHHHHHHhCcEEEEEeCcchhcChHHHHHH
Confidence            357899999999999 55799999999999999999999 8999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhhCCceeEeEEeecCCCcccccCCchhhhhhhhhh
Q 005191           81 VKILKCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKHDK  122 (709)
Q Consensus        81 ~~~~~~~~~~~~~vlPvf~~v~p~~vr~~~g~~~~~~~~~~~  122 (709)
                      ..++++...+++.|+||||+|+|++|++|.|.|+++|.....
T Consensus        96 ~~~~~~~~~~~~~iiPV~~~v~p~~v~~~~~~~~~~~~~~~~  137 (154)
T 3h16_A           96 DGLFQLESSGRSRILPIWHKVSKDEVASFSPTMADKLAFNTS  137 (154)
T ss_dssp             HHHTCCCTTSCCCEEEEEESCCTGGGTTTCCCCCSSCCEETT
T ss_pred             HHHHHHHhcCCCEEEEEEecCCHHHHhhCCccHHHHHhhhcC
Confidence            999998877788999999999999999999999998876543

>3ub2_A TOLL/interleukin-1 receptor domain-containing ADA protein; TIR domain, TLRS adaptor, immune system; 2.40A {Homo sapiens} PDB: 3ub3_A 3ub4_A 2y92_A

Probab=99.87  E-value=6.4e-24  Score=197.86  Aligned_cols=133  Identities=21%  Similarity=0.351  Sum_probs=91.6

Q ss_pred             CCcceEEecCCcccccCchHHHHHHHHHh--CCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFLSHLVVALQE--KKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDE   79 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~~~L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~E   79 (709)
                      +.+|||||||+++|  ..||.+|+.+|++  .|+++|+++ ++.+|+.+.++|.+||++|+++|+|+|++|++|.||..|
T Consensus         8 ~k~YDvFISy~~~D--~~~v~~L~~~Le~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~I~VlS~~y~~S~wc~~E   85 (146)
T 3ub2_A            8 SKDYDVCVCHSEED--LVAAQDLVSYLEGSTASLRCFLQLRDATPGGAIVSELCQALSSSHCRVLLITPGFLQDPWCKYQ   85 (146)
T ss_dssp             SSSEEEEEECCGGG--HHHHHHHHHHHHC------------------CCCEEECCTTCCEEEEEEEECHHHHHCHHHHHH
T ss_pred             CCcceEEEeCChhh--HHHHHHHHHHHhCcCCCeEEEEECccccccccHHHHHHHHHHhCCEEEEEECcccccCHHHHHH
Confidence            45799999999999  5589999999998  599999998 999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhhCCceeEeEEeecCCCcccccCC--chhhhhhhhhhhhccchhHHHHHHHHHH
Q 005191           80 LVKILKCHKKNIQLVIPIFYNVDPSVVRNQTG--SFKDAFVKHDKQFNKKMPEKVQKWRAVL  139 (709)
Q Consensus        80 l~~~~~~~~~~~~~vlPvf~~v~p~~vr~~~g--~~~~~~~~~~~~~~~~~~~~v~~w~~aL  139 (709)
                      +..++.+...+..+||||||+|+++++.....  .|.+. ..++..|.. +.+.|.+|++++
T Consensus        86 l~~al~~~~~~~~~vIpv~~~v~~~~lp~~Lr~~~~id~-~~~d~~f~~-l~~~v~~~~~~~  145 (146)
T 3ub2_A           86 MLQALTEAPGAEGCTIPLLSGLSRAAYPPELRFMYYVDG-RGPDGGFRQ-VKEAVMRYLQTL  145 (146)
T ss_dssp             HHHHHHTSSSSSSEEEEEECSCCGGGSCGGGGGSCCEET-TSGGGGHHH-HHHHHHHHHTTC
T ss_pred             HHHHHHHHhhcCCcEEEEEcCCChhhCCHHHhCeeeeec-cChHhhHHH-HHHHHHHHHHhc
Confidence            99999987434447889999998776654332  11122 233444432 235677777653

>1fyx_A TOLL-like receptor 2; beta-alpha-beta fold, signaling protein; 2.80A {Homo sapiens} SCOP: c.23.2.1 PDB: 1fyw_A 1o77_A

Probab=99.81  E-value=2.6e-21  Score=181.32  Aligned_cols=100  Identities=23%  Similarity=0.405  Sum_probs=90.1

Q ss_pred             CCCcceEEecCCcccccCchHHH-HHHHHHhC--CCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhH
Q 005191            2 ASCKYDVFLSFRGEDTRDNFLSH-LVVALQEK--KIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCL   77 (709)
Q Consensus         2 ~~~~ydvFiS~~~~D~~~~f~~~-L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~   77 (709)
                      .+..|||||||+++|  ..||.+ |+..|+++  |+++|+|+ |+.+|+++.++|.+||++|+++|+|+||+|++|.||+
T Consensus         2 ~~~~yDvFiSy~~~D--~~~v~~~L~~~Le~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~Sr~~I~VlS~~y~~S~wc~   79 (149)
T 1fyx_A            2 RNIXYDAFVSYSERD--AYWVENLMVQELENFNPPFKLXLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWXK   79 (149)
T ss_dssp             CSCCEEEEEECCGGG--HHHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHH
T ss_pred             CCccceEEEECCccc--HHHHHHHHHHHHhcCCCCeEEeeccccCCCchhHHHHHHHHHHHcCEEEEEeCcchhccchHH
Confidence            468899999999999  479997 99999987  99999999 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHh-hhhCCceeEeEEee-cCC
Q 005191           78 DELVKILKC-HKKNIQLVIPIFYN-VDP  103 (709)
Q Consensus        78 ~El~~~~~~-~~~~~~~vlPvf~~-v~p  103 (709)
                      .|+..++.+ .+.++++||||||+ +++
T Consensus        80 ~El~~a~~~~~~~~~~~vIpv~~~~i~~  107 (149)
T 1fyx_A           80 YELDFSHFRLFDENNDAAILILLEPIEK  107 (149)
T ss_dssp             HHSCCSCCTTCGGGTTCCEEEESSCCCT
T ss_pred             HHHHHHHHHHHhcCCCEEEEEEecCCCh
Confidence            999998853 35566789999987 444

>2js7_A Myeloid differentiation primary response protein MYD88; MYD88_human, TIR domain, TOLL like receptor adaptor domain, innate immune signaling; NMR {Homo sapiens} PDB: 2z5v_A

Probab=99.81  E-value=5.2e-21  Score=181.13  Aligned_cols=99  Identities=20%  Similarity=0.343  Sum_probs=90.1

Q ss_pred             CCcceEEecCCcccccCchHHHHHHHHHhC--CCceEEcC-CCCCCCcccHHHHHHHH-hccceeEEeccCcccchhhHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFLSHLVVALQEK--KIKTFIDE-ELTRGDQISPALVKAIE-ESMISVIIFSKNYASSKWCLD   78 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~--g~~~~~d~-~~~~g~~~~~~i~~ai~-~S~~~ivvlS~~y~~S~wc~~   78 (709)
                      +..|||||||+++|  .+||.+|+.+|+++  |+++|+|+ ++.+|+++.++|.++|+ +|+++|+|+|++|++|.||..
T Consensus        14 ~~~yDvFISys~~D--~~fv~~L~~~Le~~~~g~~~~~~~rd~~~G~~i~~~i~~~I~~~Sr~~IvVlS~~y~~S~wc~~   91 (160)
T 2js7_A           14 PERFDAFICYCPSD--IQFVQEMIRQLEQTNYRLKLCVSDRDVLPGTCVWSIASELIEKRCRRMVVVVSDDYLQSKECDF   91 (160)
T ss_dssp             TTCEEEEEECCGGG--HHHHHHHHHHHHTSSSCCCCEESCCSSSSSCSCCCCCGGGHHHHEEEEEEECCHHHHHSHHHHH
T ss_pred             CcceEEEEEccccc--HHHHHHHHHHHhcCCCceEEEEeCCCCCCCCcHHHHHHHHHHHhCCEEEEEECcchhcCHHHHH
Confidence            57899999999999  78999999999985  69999999 99999999999999999 799999999999999999999


Q ss_pred             HHHHHHHhh-hhCCceeEeEEeecCC
Q 005191           79 ELVKILKCH-KKNIQLVIPIFYNVDP  103 (709)
Q Consensus        79 El~~~~~~~-~~~~~~vlPvf~~v~p  103 (709)
                      |+..++.+. +..+++||||+|+.-+
T Consensus        92 El~~a~~~~~~~~~~~vIpV~~~~~~  117 (160)
T 2js7_A           92 QTKFALSLSPGAHQKRLIPIKYKAMK  117 (160)
T ss_dssp             HHHHHHHHCTTHHHHTEEEEESSCCC
T ss_pred             HHHHHHHHHHccCCCEEEEEEEcccc
Confidence            999999875 3445689999998654

>2j67_A TOLL like receptor 10; TIR, IL-1, TLR10, membrane, innate immunity, immune response, leucine-rich repeat, glycoprotein, transmembrane; 2.20A {Homo sapiens} PDB: 1fyv_A

Probab=99.80  E-value=1.3e-20  Score=181.29  Aligned_cols=97  Identities=24%  Similarity=0.437  Sum_probs=84.7

Q ss_pred             CCcceEEecCCcccccCchHHH-HHHHHHh--CCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFLSH-LVVALQE--KKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLD   78 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~~~-L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~   78 (709)
                      +.+|||||||+++|  .+||.+ |+..|++  .|+++|+|+ |+.+|+++.++|.+||++|+++|+|+||+|++|.||..
T Consensus        33 ~~~yDvFISys~~D--~~fv~~~L~~~LE~~~~g~~~~l~~rD~~~G~~i~~~i~~aI~~Sr~~IvVlS~~yl~S~wc~~  110 (178)
T 2j67_A           33 NVRFHAFISYSEHD--SLWVKNELIPNLEKEDGSILICLYESYFDPGKSISENIVSFIEKSYKSIFVLSPNFVQNEWCHY  110 (178)
T ss_dssp             SCCEEEEEECCGGG--HHHHHHTHHHHHTTCC-CCCEEEHHHHCCTTSCHHHHHHHHHHTEEEEEEEECHHHHHHTGGGT
T ss_pred             CccceEEEECCCCC--HHHHHHHHHHHHhcccCCeEEEEecccCCCCccHHHHHHHHHHhCCEEEEEecccccccchHHH
Confidence            56899999999999  579986 9999998  899999999 99999999999999999999999999999999999999


Q ss_pred             HHHHHHHhh-hhCCceeEeEEeec
Q 005191           79 ELVKILKCH-KKNIQLVIPIFYNV  101 (709)
Q Consensus        79 El~~~~~~~-~~~~~~vlPvf~~v  101 (709)
                      |+..++.+. +..+++||||||+-
T Consensus       111 El~~a~~~~~~~~~~~vIpV~~~~  134 (178)
T 2j67_A          111 EFYFAHHNLFHENSDHIILILLEP  134 (178)
T ss_dssp             HHHHTTCC-------CEEEEESSC
T ss_pred             HHHHHHHHHHhcCCCEEEEEEecC
Confidence            999998644 44567899999883

>1t3g_A X-linked interleukin-1 receptor accessory protein-like 1; TIR, IL-1RAPL, IL-1R, TLR, membrane protein; 2.30A {Homo sapiens}

Probab=99.79  E-value=8.3e-20  Score=172.67  Aligned_cols=100  Identities=22%  Similarity=0.326  Sum_probs=88.0

Q ss_pred             CcceEEecCCccccc---------CchHHHHHH-HHH-hCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcc
Q 005191            4 CKYDVFLSFRGEDTR---------DNFLSHLVV-ALQ-EKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYA   71 (709)
Q Consensus         4 ~~ydvFiS~~~~D~~---------~~f~~~L~~-~L~-~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~   71 (709)
                      ..|||||||+++|+.         .+||.++.. .|+ +.|+++|+|+ |+.+|+.+.++|.++|++|+.+|+|+|++|+
T Consensus         1 k~yDaFISy~~~D~~wv~~~~~~~~~fv~~ll~~~LE~~~g~~l~~~~rD~~~G~~i~~~i~~~I~~Sr~~IvVlS~~y~   80 (159)
T 1t3g_A            1 KDYDAYLSYTKVDPDQWNQETGEEERFALEILPDMLEKHYGYKLFIPDRDLIPTGTYIEDVARCVDQSKRLIIVMTPNYV   80 (159)
T ss_dssp             CCBSEEEECCCCC-------CCSHHHHHHTHHHHHHHHTSCCCEECHHHHCCCCTTHHHHHHHHHHTBSEEEEEECHHHH
T ss_pred             CCceEEEeCccccchhhhccchhhHHHHHHHHHHHHcCCCCeEEEEEcccccCccchHHHHHHHHHHcCEEEEEEccchh
Confidence            379999999999963         468888665 699 7999999999 9999999999999999999999999999997


Q ss_pred             -cchhhHHHHHHHHHhh-hhCCceeEeEEeecCC
Q 005191           72 -SSKWCLDELVKILKCH-KKNIQLVIPIFYNVDP  103 (709)
Q Consensus        72 -~S~wc~~El~~~~~~~-~~~~~~vlPvf~~v~p  103 (709)
                       .|.||..|+..++.+. ..++.+||||+|+-.+
T Consensus        81 ~~S~wc~~El~~a~~~~~~~~~~~vI~I~~~~~~  114 (159)
T 1t3g_A           81 VRRGWSIFELETRLRNMLVTGEIKVILIECSELR  114 (159)
T ss_dssp             HTTTTHHHHHSHHHHHHHHTTSSEEEEEECSCCC
T ss_pred             hcChHHHHHHHHHHHHHHhcCCCEEEEEEecccc
Confidence             9999999999999876 5567899999887444

>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus abyssi}

Probab=99.77  E-value=1.8e-17  Score=177.24  Aligned_cols=291  Identities=15%  Similarity=0.093  Sum_probs=178.7

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccc--cccCCHH
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREES--EKCGGLV  253 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~--~~~~~l~  253 (709)
                      .++..+..|+||+.+++.|.+++..+    +++.|+|++|+|||||+++++++.    . .+|+. .....  .......
T Consensus         6 ~~~~~~~~~~gR~~el~~L~~~l~~~----~~v~i~G~~G~GKT~Ll~~~~~~~----~-~~~~~-~~~~~~~~~~~~~~   75 (350)
T 2qen_A            6 RPKTRREDIFDREEESRKLEESLENY----PLTLLLGIRRVGKSSLLRAFLNER----P-GILID-CRELYAERGHITRE   75 (350)
T ss_dssp             SCCCSGGGSCSCHHHHHHHHHHHHHC----SEEEEECCTTSSHHHHHHHHHHHS----S-EEEEE-HHHHHHTTTCBCHH
T ss_pred             CCCCChHhcCChHHHHHHHHHHHhcC----CeEEEECCCcCCHHHHHHHHHHHc----C-cEEEE-eecccccccCCCHH
Confidence            45566788999999999999998742    689999999999999999999875    1 45554 22211  0001334


Q ss_pred             HHHHHHHHHhcC----------------CCCCCCCCC---hhHHHHHHHcc-CceEEEecCCCChhh---------hhhh
Q 005191          254 HLRNQVLSKLLG----------------ENFDIGTPK---IPQYIRDRLQR-MKVFIVLDDVNKYGQ---------LEYF  304 (709)
Q Consensus       254 ~l~~~ll~~l~~----------------~~~~~~~~~---~~~~l~~~L~~-kr~LLVLDdv~~~~~---------~~~l  304 (709)
                      .+...+...+..                .........   ....+.+.... ++++|||||++....         +..+
T Consensus        76 ~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~vlvlDe~~~~~~~~~~~~~~~~~~L  155 (350)
T 2qen_A           76 ELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLALF  155 (350)
T ss_dssp             HHHHHHHHHSCSHHHHHHHHTCCCCCGGGTSCGGGCCHHHHHHHHHHHHHHHSCEEEEEETGGGGGGBTTTTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHhhhceeEEEecceeeccccchHHHHHHHHHHHHhccCCEEEEEeCHHHHhccCccchhhHHHHH
Confidence            444544444321                000000111   23334444432 499999999965332         2222


Q ss_pred             hcCCCCCCCCeEEEEEcCchhhhhh-----------c-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHH
Q 005191          305 DGGLDRFGPGSRIIVTTRDKTILER-----------Y-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAA  372 (709)
Q Consensus       305 ~~~l~~~~~gsrIIvTTR~~~v~~~-----------~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv  372 (709)
                      ..... ..++.++|+|++.......           . .....+++.+|+.+|+.+++..........  ...+.+..++
T Consensus       156 ~~~~~-~~~~~~~il~g~~~~~l~~~l~~~~~~~~l~~~~~~~i~l~pl~~~e~~~~l~~~~~~~~~~--~~~~~~~~i~  232 (350)
T 2qen_A          156 AYAYD-SLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFLKRGFREVNLD--VPENEIEEAV  232 (350)
T ss_dssp             HHHHH-HCTTEEEEEEESSHHHHHHHHCTTCTTSTTTTCCCEEEECCCCCHHHHHHHHHHHHHTTTCC--CCHHHHHHHH
T ss_pred             HHHHH-hcCCeEEEEECCcHHHHHHHHhhcCCCCccccCccceeeCCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHH
Confidence            22111 1257889999887543221           1 113578999999999999997654211111  1235678999


Q ss_pred             HHhcCCchHHHHHhhhhcC-CChhhHHHHHHHhhcCCCCcHHhHHHHhhcCC---CHHHHHHHHhccccccCcchhHHHH
Q 005191          373 HYAKGNPLALQVLGSSFHR-KSKPDWVNTLNNLKRISDSDIYGVLKIGYDEL---SWEEKNLFLDIACFFNGDDREHVMW  448 (709)
Q Consensus       373 ~~~gGlPLAL~~la~~L~~-~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L---~~~~k~~fl~lA~Fp~~~~~~~l~~  448 (709)
                      +.|+|+|+++..++..+.. .+...+.   ..+.    +.+...+...+..+   ++..+.++..+|+ . ..+...+..
T Consensus       233 ~~tgG~P~~l~~~~~~~~~~~~~~~~~---~~~~----~~~~~~~~~~l~~l~~~~~~~~~~l~~la~-g-~~~~~~l~~  303 (350)
T 2qen_A          233 ELLDGIPGWLVVFGVEYLRNGDFGRAM---KRTL----EVAKGLIMGELEELRRRSPRYVDILRAIAL-G-YNRWSLIRD  303 (350)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCCHHHHH---HHHH----HHHHHHHHHHHHHHHHHCHHHHHHHHHHHT-T-CCSHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHhccccHhHHH---HHHH----HHHHHHHHHHHHHHHhCChhHHHHHHHHHh-C-CCCHHHHHH
Confidence            9999999999999876532 2222221   1110    11112222223333   7899999999998 3 345566666


Q ss_pred             HHh-----cCCchHHHHHHHHHhCCCeEEeCCEEEE-cHHHHHHHH
Q 005191          449 ILN-----DDYYSVQYGLNVLVNKSLIKISYNKLQM-HDLLQEMGR  488 (709)
Q Consensus       449 l~~-----~~g~~~~~~l~~L~~rsLI~~~~~~~~m-Hdlvr~~a~  488 (709)
                      .+.     ........+++.|.+.+||...++.|.+ |++++++.+
T Consensus       304 ~~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~y~~~~p~~~~~~~  349 (350)
T 2qen_A          304 YLAVKGTKIPEPRLYALLENLKKMNWIVEEDNTYKIADPVVATVLR  349 (350)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTSEEEETTEEEESSHHHHHHHT
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHhCCCEEecCCEEEEecHHHHHHHc
Confidence            552     2223456789999999999988777765 889888764

>2fna_A Conserved hypothetical protein; structural genomics, joint center for structural genomics, J protein structure initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus} SCOP: a.4.5.11 c.37.1.20

Probab=99.74  E-value=3.1e-17  Score=175.76  Aligned_cols=291  Identities=14%  Similarity=0.100  Sum_probs=173.0

Q ss_pred             CCCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccc-cccCCHHH
Q 005191          176 AAISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREES-EKCGGLVH  254 (709)
Q Consensus       176 ~~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~-~~~~~l~~  254 (709)
                      .++..+..|+||+++++.|.+ +..     +++.|+|++|+|||+|+++++++...   ..+|+. ..... ........
T Consensus         7 ~~~~~~~~~~gR~~el~~L~~-l~~-----~~v~i~G~~G~GKT~L~~~~~~~~~~---~~~~~~-~~~~~~~~~~~~~~   76 (357)
T 2fna_A            7 SPKDNRKDFFDREKEIEKLKG-LRA-----PITLVLGLRRTGKSSIIKIGINELNL---PYIYLD-LRKFEERNYISYKD   76 (357)
T ss_dssp             SCCCSGGGSCCCHHHHHHHHH-TCS-----SEEEEEESTTSSHHHHHHHHHHHHTC---CEEEEE-GGGGTTCSCCCHHH
T ss_pred             CCCCCHHHhcChHHHHHHHHH-hcC-----CcEEEECCCCCCHHHHHHHHHHhcCC---CEEEEE-chhhccccCCCHHH
Confidence            445567889999999999999 763     69999999999999999999987643   245554 22210 00011222


Q ss_pred             HHHHHHHHhc-------------CC-------C--CCCC----CCChhHHHHHHHcc---CceEEEecCCCChh-----h
Q 005191          255 LRNQVLSKLL-------------GE-------N--FDIG----TPKIPQYIRDRLQR---MKVFIVLDDVNKYG-----Q  300 (709)
Q Consensus       255 l~~~ll~~l~-------------~~-------~--~~~~----~~~~~~~l~~~L~~---kr~LLVLDdv~~~~-----~  300 (709)
                      ....+...+.             ..       .  ....    .......+.+.+..   ++++|||||++...     .
T Consensus        77 ~~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vlvlDe~~~~~~~~~~~  156 (357)
T 2fna_A           77 FLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVN  156 (357)
T ss_dssp             HHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCC
T ss_pred             HHHHHHHHHHHHhhhhhHHHHHhcccceEEecceEEEeccCCcchhhHHHHHHHHHhcCCCCeEEEEECHHHhhccCchh
Confidence            2222222210             00       0  0000    11223333344432   49999999995422     2


Q ss_pred             hhhhhcCCCCCCCCeEEEEEcCchhhhhh----------c-C-cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHH
Q 005191          301 LEYFDGGLDRFGPGSRIIVTTRDKTILER----------Y-G-THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHS  368 (709)
Q Consensus       301 ~~~l~~~l~~~~~gsrIIvTTR~~~v~~~----------~-~-~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~  368 (709)
                      +..++..+....++.++|+|++.......          . + ....+++.+|+.+|+.+++...........+.    .
T Consensus       157 ~~~~l~~~~~~~~~~~~i~~g~~~~~l~~~l~~~~~~~~l~~r~~~~i~l~~l~~~e~~~~l~~~~~~~~~~~~~----~  232 (357)
T 2fna_A          157 LLPALAYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----Y  232 (357)
T ss_dssp             CHHHHHHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----H
T ss_pred             HHHHHHHHHHcCCCeEEEEEcCchHHHHHHHhccCCCCccccCccceeecCCCCHHHHHHHHHHHHHHcCCCCCc----H
Confidence            22222221111247889999997643221          1 1 13678999999999999998754211111111    2


Q ss_pred             HHHHHHhcCCchHHHHHhhhhcC-CChhhHHHH-HHHhhcCCCCcHHhHHHHhh---cCCCHHHHHHHHhccccccCcch
Q 005191          369 ETAAHYAKGNPLALQVLGSSFHR-KSKPDWVNT-LNNLKRISDSDIYGVLKIGY---DELSWEEKNLFLDIACFFNGDDR  443 (709)
Q Consensus       369 ~~Iv~~~gGlPLAL~~la~~L~~-~~~~ew~~~-L~~L~~~~~~~i~~~L~~Sy---~~L~~~~k~~fl~lA~Fp~~~~~  443 (709)
                      ..|++.|+|+|+++..++..+.. .+...|... .+...    ..+..-+...+   ..|++..+.++..+|+ . . +.
T Consensus       233 ~~i~~~t~G~P~~l~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~l~~~~~~~l~~la~-g-~-~~  305 (357)
T 2fna_A          233 EVVYEKIGGIPGWLTYFGFIYLDNKNLDFAINQTLEYAK----KLILKEFENFLHGREIARKRYLNIMRTLSK-C-G-KW  305 (357)
T ss_dssp             HHHHHHHCSCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH----HHHHHHHHHHHTTCGGGHHHHHHHHHHHTT-C-B-CH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHccccchHHHHHHHHHHHH----HHHHHHHHHHhhccccccHHHHHHHHHHHc-C-C-CH
Confidence            78999999999999999877643 233333211 11110    01111122111   1688999999999998 3 3 55


Q ss_pred             hHHHHHH----h--cCCchHHHHHHHHHhCCCeEEeCCEEE-EcHHHHHHH
Q 005191          444 EHVMWIL----N--DDYYSVQYGLNVLVNKSLIKISYNKLQ-MHDLLQEMG  487 (709)
Q Consensus       444 ~~l~~l~----~--~~g~~~~~~l~~L~~rsLI~~~~~~~~-mHdlvr~~a  487 (709)
                      ..+....    .  ........+++.|.+.+||...++.|+ .|++++++.
T Consensus       306 ~~l~~~~~~~~g~~~~~~~~~~~L~~L~~~gli~~~~~~y~f~~~~~~~~l  356 (357)
T 2fna_A          306 SDVKRALELEEGIEISDSEIYNYLTQLTKHSWIIKEGEKYCPSEPLISLAF  356 (357)
T ss_dssp             HHHHHHHHHHHCSCCCHHHHHHHHHHHHHTTSEEESSSCEEESSHHHHHHT
T ss_pred             HHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEecCCEEEecCHHHHHhh
Confidence            6655432    2  122346778999999999998766676 589999874

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=99.68  E-value=9.3e-16  Score=168.02  Aligned_cols=284  Identities=13%  Similarity=-0.011  Sum_probs=170.5

Q ss_pred             CCCCCccccchhhhHHHhhh-hc--cC--CCceEEEE--EccCCCchhHHHHHHHHHhhhcc-----cc-eEEEeeeccc
Q 005191          179 SDSDGLIGLESHVEQVRSLL-AI--GL--PDVRLVGI--WGMGGIGKTTIAGVVFNQFSQKF-----EG-KYFMANVREE  245 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L-~~--~~--~~~~vv~I--~G~gGiGKTtLA~~v~~~~~~~f-----~~-~~~v~~~~~~  245 (709)
                      ..+..|+||+.+++.|.+.+ ..  ..  ...+.+.|  +|++|+|||+||+.+++.....+     .. .+|+. ..  
T Consensus        19 ~~p~~l~gR~~el~~l~~~l~~~~~~~~~~~~~~~li~i~G~~G~GKT~L~~~~~~~~~~~~~~~~~~~~~~~~~-~~--   95 (412)
T 1w5s_A           19 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN-AF--   95 (412)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE-GG--
T ss_pred             cCCCCCCChHHHHHHHHHHHhHHHhcCCCCCCCEEEEeCcCcCCCCHHHHHHHHHHHHHHHHhccCCceeEEEEE-CC--
Confidence            34578999999999999988 52  11  23566777  99999999999999999875532     22 23443 11  


Q ss_pred             ccccCCHHHHHHHHHHHhcCCCCCCCC--CChhHHHHHHHc--cCceEEEecCCCCh--------hhhhhhhcCCCCC--
Q 005191          246 SEKCGGLVHLRNQVLSKLLGENFDIGT--PKIPQYIRDRLQ--RMKVFIVLDDVNKY--------GQLEYFDGGLDRF--  311 (709)
Q Consensus       246 ~~~~~~l~~l~~~ll~~l~~~~~~~~~--~~~~~~l~~~L~--~kr~LLVLDdv~~~--------~~~~~l~~~l~~~--  311 (709)
                       .. .....+...++..++........  .+....+.+.+.  +++++|||||++..        +.+..+...+...  
T Consensus        96 -~~-~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~llvlDe~~~l~~~~~~~~~~l~~l~~~~~~~~~  173 (412)
T 1w5s_A           96 -NA-PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPS  173 (412)
T ss_dssp             -GC-CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCC
T ss_pred             -CC-CCHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEEeCHHHHhhccCcchHHHHHHHHHHHhccc
Confidence             11 45667788888887543221111  114455666654  67999999999653        3333333222111  


Q ss_pred             -C--CCeEEEEEcCchhhhhhc---------CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhc---
Q 005191          312 -G--PGSRIIVTTRDKTILERY---------GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAK---  376 (709)
Q Consensus       312 -~--~gsrIIvTTR~~~v~~~~---------~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~g---  376 (709)
                       +  .+..+|+||+...+....         .....+.+++|+.+++.++|..++...........+....+++.++   
T Consensus       174 ~~~~~~v~lI~~~~~~~~~~~l~~~~~~~~~~~~~~i~l~~l~~~e~~~ll~~~~~~~~~~~~~~~~~~~~i~~~~~~~~  253 (412)
T 1w5s_A          174 RDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDK  253 (412)
T ss_dssp             TTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHHCGGG
T ss_pred             CCCCceEEEEEEeccccHHHHHhhhcchhhhhcCCeeeeCCCCHHHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHhc
Confidence             2  455688888765432111         1122389999999999999976542111111122456888999999   


Q ss_pred             ---CCchHHHHHhhhhc------CC---ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhcccccc----C
Q 005191          377 ---GNPLALQVLGSSFH------RK---SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFN----G  440 (709)
Q Consensus       377 ---GlPLAL~~la~~L~------~~---~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~----~  440 (709)
                         |+|..+..+.....      +.   +.+.+...+.....      ...+..++..||+..+.++..+|.+..    .
T Consensus       254 ~~~G~p~~~~~l~~~a~~~a~~~~~~~i~~~~v~~~~~~~~~------~~~~~~~l~~l~~~~~~~l~aia~l~~~~~~~  327 (412)
T 1w5s_A          254 GGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA------ASIQTHELEALSIHELIILRLIAEATLGGMEW  327 (412)
T ss_dssp             TSCCCHHHHHHHHHHHHHHHHHTTCSSCCHHHHHHHHHHC------------CCSSSSSCHHHHHHHHHHHHHHHTTCSS
T ss_pred             cCCCcHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHhc------cchHHHHHHcCCHHHHHHHHHHHHHHhcCCCC
Confidence               99976665543321      11   22333333332110      234556778999999999999997642    2


Q ss_pred             cchhHHHH----HH-hcCC------chHHHHHHHHHhCCCeEEe
Q 005191          441 DDREHVMW----IL-NDDY------YSVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       441 ~~~~~l~~----l~-~~~g------~~~~~~l~~L~~rsLI~~~  473 (709)
                      ++...+..    +. ...|      .....+++.|.+.+||...
T Consensus       328 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~gli~~~  371 (412)
T 1w5s_A          328 INAGLLRQRYEDASLTMYNVKPRGYTQYHIYLKHLTSLGLVDAK  371 (412)
T ss_dssp             BCHHHHHHHHHHHHHHHSCCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             ccHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhCCCEEee
Confidence            23333221    22 1112      2256789999999999875

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.56  E-value=5.9e-13  Score=144.27  Aligned_cols=277  Identities=13%  Similarity=0.026  Sum_probs=173.4

Q ss_pred             CCCccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-------cc-eEEEeeecccccccC
Q 005191          181 SDGLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-------EG-KYFMANVREESEKCG  250 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-------~~-~~~v~~~~~~~~~~~  250 (709)
                      +..++||+.+++++.+++..  .....+.+.|+|++|+|||+||+.+++.+....       .. .+++. ...   . .
T Consensus        19 p~~l~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~~~~~~~i~-~~~---~-~   93 (384)
T 2qby_B           19 FKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVN-CRE---V-G   93 (384)
T ss_dssp             CSSCTTCHHHHHHHHHHHHHHHTTCCCCEEEEEECTTSSHHHHHHHHHHHHHHHHHHSSSSTTCEEEEEE-HHH---H-C
T ss_pred             CCCCCChHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhhhcCCCCceEEEEE-Ccc---C-C
Confidence            47899999999999988864  234467899999999999999999999874431       22 23333 211   1 3


Q ss_pred             -CHHHHHHHHHHHhcCCCCCCCCC---ChhHHHHHHHccCceEEEecCCCChh------h-hhhhhcCCCCCCCCeEEEE
Q 005191          251 -GLVHLRNQVLSKLLGENFDIGTP---KIPQYIRDRLQRMKVFIVLDDVNKYG------Q-LEYFDGGLDRFGPGSRIIV  319 (709)
Q Consensus       251 -~l~~l~~~ll~~l~~~~~~~~~~---~~~~~l~~~L~~kr~LLVLDdv~~~~------~-~~~l~~~l~~~~~gsrIIv  319 (709)
                       ....+...++..+.+........   +....+.+.+..++.+|||||++...      . +..+....    .+..+|+
T Consensus        94 ~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~~l~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~----~~~~iI~  169 (384)
T 2qby_B           94 GTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSD----ANISVIM  169 (384)
T ss_dssp             SCHHHHHHHHHHHHHCSCCCSSSSCTHHHHHHHHHHHSSSCEEEEEETTHHHHHSTTSHHHHHHHHTSS----SCEEEEE
T ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHhccCCCEEEEECHHHhccCCCCceeHHHHhcCC----cceEEEE
Confidence             55667777777773322221111   14666777777766699999996532      2 33333332    6788999


Q ss_pred             EcCchhhhhhc------CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhc---CCch-HHHHHhhhh
Q 005191          320 TTRDKTILERY------GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAK---GNPL-ALQVLGSSF  389 (709)
Q Consensus       320 TTR~~~v~~~~------~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~g---GlPL-AL~~la~~L  389 (709)
                      ||+........      .....+.+++++.++..+++..++...........+..+.+++.++   |+|. ++..+-...
T Consensus       170 ~t~~~~~~~~l~~~l~sr~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~i~~~~~~~~G~~r~a~~~l~~a~  249 (384)
T 2qby_B          170 ISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAA  249 (384)
T ss_dssp             ECSSTTTTTTSCHHHHHTCCCEEEECCCCHHHHHHHHHHHHHHTSCTTSCCSHHHHHHHHHHHTTCCCHHHHHHHHHHHH
T ss_pred             EECCCchHhhhCHHHHhcCCCeEEECCCCHHHHHHHHHHHHHhhcccCCcCHHHHHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            99875321111      1123899999999999999998753111111122345778888888   9887 333332222


Q ss_pred             --c----CCChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhcccccc-CcchhHHHHHHhcCC------ch
Q 005191          390 --H----RKSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFN-GDDREHVMWILNDDY------YS  456 (709)
Q Consensus       390 --~----~~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~-~~~~~~l~~l~~~~g------~~  456 (709)
                        .    .-+.+.+...++...       ...+..++..|++.++..+..++.... +...+....+....|      ..
T Consensus       250 ~~a~~~~~i~~~~v~~~~~~~~-------~~~~~~~~~~l~~~~~~~l~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~  322 (384)
T 2qby_B          250 QLASGGGIIRKEHVDKAIVDYE-------QERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRR  322 (384)
T ss_dssp             HHTTSSSCCCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHTCCBHHHHHHHHHHHHHHTTCCCCCHHH
T ss_pred             HHhcCCCccCHHHHHHHHHHHh-------cchHHHHHHcCCHHHHHHHHHHHHhcccChHHHHHHHHHHHcCCCCCCHHH
Confidence              1    124566666666542       245777889999999999888887111 111112222222211      23


Q ss_pred             HHHHHHHHHhCCCeEEe
Q 005191          457 VQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       457 ~~~~l~~L~~rsLI~~~  473 (709)
                      ...++..|.++|+|...
T Consensus       323 ~~~~l~~L~~~gli~~~  339 (384)
T 2qby_B          323 FSDIISELDMFGIVKIR  339 (384)
T ss_dssp             HHHHHHHHHHTTSEEEE
T ss_pred             HHHHHHHHHhCCCEEEE
Confidence            56789999999999874

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=99.53  E-value=4.7e-13  Score=144.69  Aligned_cols=283  Identities=14%  Similarity=0.088  Sum_probs=169.8

Q ss_pred             CCCCCccccchhhhHHHhhhhcc--CCCceEEEEEccCCCchhHHHHHHHHHhhhccc---ceEEEeeecccccccCCHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIG--LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE---GKYFMANVREESEKCGGLV  253 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---~~~~v~~~~~~~~~~~~l~  253 (709)
                      ..+..|+||+.+++.+.+++...  ....+.+.|+|++|+||||||+.+++.....+.   ..+|+. ...   . ....
T Consensus        17 ~~p~~~~gr~~e~~~l~~~l~~~~~~~~~~~vli~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~i~-~~~---~-~~~~   91 (386)
T 2qby_A           17 YIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYIN-TRQ---I-DTPY   91 (386)
T ss_dssp             CCCSCCTTCHHHHHHHHHSSGGGGGTCCCCCEEEEECTTSSHHHHHHHHHHHHHHHTCSSCEEEEEE-HHH---H-CSHH
T ss_pred             cCCCCCCChHHHHHHHHHHHHHHHcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhcCCceEEEEE-CCC---C-CCHH
Confidence            44588999999999999988752  345678999999999999999999998766542   233333 211   1 3344


Q ss_pred             HHHHHHHHHhcCCCCCCCC-C-ChhHHHHHHHcc--CceEEEecCCCCh------hhhhhhhcCCCC-CCCCeEEEEEcC
Q 005191          254 HLRNQVLSKLLGENFDIGT-P-KIPQYIRDRLQR--MKVFIVLDDVNKY------GQLEYFDGGLDR-FGPGSRIIVTTR  322 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~-~-~~~~~l~~~L~~--kr~LLVLDdv~~~------~~~~~l~~~l~~-~~~gsrIIvTTR  322 (709)
                      .+...++..++........ . +....+.+.+..  ++.+||||+++..      +.+..+...+.. ...+..+|+||+
T Consensus        92 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~~l~~l~~~~~~~~~~~~~~I~~~~  171 (386)
T 2qby_A           92 RVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITN  171 (386)
T ss_dssp             HHHHHHTTTTSCCCCSSSCCHHHHHHHHHHHHHTCCSCEEEEEETHHHHHHSSCSTHHHHHHHHHHSCCC--EEEEEEES
T ss_pred             HHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcChhhhhccCcCHHHHHHhhchhhcCCCeEEEEEEEC
Confidence            5566665555332211111 1 134455555543  4899999999542      233333322211 134567788887


Q ss_pred             chhhhhhcC-------cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhc---CCchHHHHHhhhhc--
Q 005191          323 DKTILERYG-------THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAK---GNPLALQVLGSSFH--  390 (709)
Q Consensus       323 ~~~v~~~~~-------~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~g---GlPLAL~~la~~L~--  390 (709)
                      .........       ....+.+++++.++..+++...+...........+..+.+++.++   |+|..+..+.....  
T Consensus       172 ~~~~~~~~~~~~~~r~~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~ll~~a~~~  251 (386)
T 2qby_A          172 DVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEI  251 (386)
T ss_dssp             CGGGGGGCTTHHHHTTTTEEEEECCCCHHHHHHHHHHHHHHHBCSSCSCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             CCChHhhhCHHHhccCCCeeEEeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence            664322211       125899999999999999987653111111223455677888888   99985444332221  


Q ss_pred             ----C---CChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhcccccc-C---cchh-------HHHHHHhc
Q 005191          391 ----R---KSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFN-G---DDRE-------HVMWILND  452 (709)
Q Consensus       391 ----~---~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~-~---~~~~-------~l~~l~~~  452 (709)
                          +   -+.+.+...++...       ...+..++..||+..+.++..++.+.. +   +...       .+......
T Consensus       252 a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~il~ai~~~~~~g~~~~~~~~l~~~~~~~~~~~g~  324 (386)
T 2qby_A          252 AERMKDTKVKEEYVYMAKEEIE-------RDRVRDIILTLPFHSKLVLMAVVSISSEENVVSTTGAVYETYLNICKKLGV  324 (386)
T ss_dssp             HHHTTCSSCCHHHHHHHHHHHH-------HHHHHHHHHTSCHHHHHHHHHHHHHC-----CEEHHHHHHHHHHHHHHHTC
T ss_pred             HHhcCCCccCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHHhcCCCceeHHHHHHHHHHHHHhcCC
Confidence                1   13444555554432       245677788999999999888885322 2   2232       22222222


Q ss_pred             CC---chHHHHHHHHHhCCCeEEe
Q 005191          453 DY---YSVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       453 ~g---~~~~~~l~~L~~rsLI~~~  473 (709)
                      ..   .....+++.|.+.|+|...
T Consensus       325 ~~~~~~~~~~~l~~L~~~gli~~~  348 (386)
T 2qby_A          325 EAVTQRRVSDIINELDMVGILTAK  348 (386)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSEEEE
T ss_pred             CCCCHHHHHHHHHHHHhCCCEEEE
Confidence            22   2356789999999999864

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=99.48  E-value=4.5e-12  Score=137.43  Aligned_cols=303  Identities=13%  Similarity=0.047  Sum_probs=181.5

Q ss_pred             CCCCccccchhhhHHHhhhhcc----CCCceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEeeecccccccCCHHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIG----LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~----~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      .++.++||+.+++.+.+++...    .+..+.+.|+|++|+|||||++.+++...... ...+++. ..   . ......
T Consensus        15 ~p~~l~gr~~~~~~l~~~l~~~~~~~~~~~~~~li~G~~G~GKTtl~~~l~~~~~~~~~~~~~~i~-~~---~-~~~~~~   89 (389)
T 1fnn_A           15 VPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYIN-GF---I-YRNFTA   89 (389)
T ss_dssp             CCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEE-TT---T-CCSHHH
T ss_pred             CCCCCCChHHHHHHHHHHHHHHHcCCCCCCCeEEEECCCCCCHHHHHHHHHHHHhhhcCeeEEEEe-Cc---c-CCCHHH
Confidence            4578999999999999988752    22234899999999999999999998875542 2233333 11   1 134566


Q ss_pred             HHHHHHHHhcCCCCCCCCC--ChhHHHHHHHc--cCceEEEecCCCC--hhhhhhhhcCCCCCC----CCeEEEEEcCch
Q 005191          255 LRNQVLSKLLGENFDIGTP--KIPQYIRDRLQ--RMKVFIVLDDVNK--YGQLEYFDGGLDRFG----PGSRIIVTTRDK  324 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~--~~~~~l~~~L~--~kr~LLVLDdv~~--~~~~~~l~~~l~~~~----~gsrIIvTTR~~  324 (709)
                      +...++..++.........  +....+.+.+.  +++.+||||+++.  ......+...+....    .+..+|++|+..
T Consensus        90 ~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDE~~~l~~~~~~~L~~~~~~~~~~~~~~~~iI~~~~~~  169 (389)
T 1fnn_A           90 IIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHND  169 (389)
T ss_dssp             HHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESST
T ss_pred             HHHHHHHHhCccCCCCCCCHHHHHHHHHHHHhhcCCeEEEEEECccccchHHHHHHHHHHHhCCCCCcCCEEEEEEECCc
Confidence            7777777774332211111  13444544443  5688999999965  344445544432211    467788888766


Q ss_pred             hhhhhcC-------cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHh---------cCCchHHHHHhhh
Q 005191          325 TILERYG-------THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYA---------KGNPLALQVLGSS  388 (709)
Q Consensus       325 ~v~~~~~-------~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~---------gGlPLAL~~la~~  388 (709)
                      .......       ....+.+++++.++..+++...+...........+..+.+++.+         +|+|..+..+...
T Consensus       170 ~~~~~l~~~~~~r~~~~~i~~~pl~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~G~~r~~~~~l~~  249 (389)
T 1fnn_A          170 AVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYR  249 (389)
T ss_dssp             HHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHHHHHBCTTSSCHHHHHHHHHHHSBSSTTCTTSCCHHHHHHHHHH
T ss_pred             hHHHHhCHHhhhcCCCceEEeCCCCHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHHH
Confidence            4332221       12378999999999999998876321111122345678899999         7988655554332


Q ss_pred             hc------CC---ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccccc---c--CcchhHHHHHHhc--
Q 005191          389 FH------RK---SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFF---N--GDDREHVMWILND--  452 (709)
Q Consensus       389 L~------~~---~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp---~--~~~~~~l~~l~~~--  452 (709)
                      ..      +.   +.+.....+...   ...    .+...+..|++..+.++..++.+.   .  ......+...+..  
T Consensus       250 a~~~a~~~~~~~i~~~~v~~~~~~~---~~~----~~~~~l~~l~~~~~~~L~~l~~~~~~~~~~~~~~~~i~~~~~~~~  322 (389)
T 1fnn_A          250 SAYAAQQNGRKHIAPEDVRKSSKEV---LFG----ISEEVLIGLPLHEKLFLLAIVRSLKISHTPYITFGDAEESYKIVC  322 (389)
T ss_dssp             HHHHHHHTTCSSCCHHHHHHHHHHH---SCC----CCHHHHHHSCHHHHHHHHHHHHHHHHHCSSCEEHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCCcCHHHHHHHHHHH---hhh----hHHHHHHcCCHHHHHHHHHHHHHHhhccCCCccHHHHHHHHHHHH
Confidence            21      11   222333333322   122    233446678999999988888654   2  2344444332221  


Q ss_pred             -----C---CchHHHHHHHHHhCCCeEEe-C-------CEEE-------EcHHHHHHHHHHHhhh
Q 005191          453 -----D---YYSVQYGLNVLVNKSLIKIS-Y-------NKLQ-------MHDLLQEMGREIVCQE  494 (709)
Q Consensus       453 -----~---g~~~~~~l~~L~~rsLI~~~-~-------~~~~-------mHdlvr~~a~~~~~~e  494 (709)
                           .   ......+++.|.+.++|... .       +++.       .|+++..+...++.+|
T Consensus       323 ~~~~~~~~~~~~~~~~l~~L~~~gli~~~~~~~~~g~~g~~~~~~l~~~~~~v~~~~~~~~~~~~  387 (389)
T 1fnn_A          323 EEYGERPRVHSQLWSYLNDLREKGIVETRQNKRGEGVRGRTTLISIGTEPLDTLEAVITKLIKEE  387 (389)
T ss_dssp             HHTTCCCCCHHHHHHHHHHHHHTTSSEEEEC---------CEEEECCSSCHHHHHHHHHHHHHHH
T ss_pred             HHcCCCCCCHHHHHHHHHHHHhCCCeEEeeeccCCCCCCceeEEEeCCCHHHHHHHHHHHHHHHh
Confidence                 1   12355789999999999874 2       2222       3677776666666554

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=99.47  E-value=2.9e-12  Score=138.67  Aligned_cols=282  Identities=13%  Similarity=0.053  Sum_probs=170.3

Q ss_pred             CCCCCccccchhhhHHHhhhhcc--CCCceEEEEEccCCCchhHHHHHHHHHhhhcc-----cc-eEEEeeecccccccC
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIG--LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-----EG-KYFMANVREESEKCG  250 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-----~~-~~~v~~~~~~~~~~~  250 (709)
                      ..+..++||+.+++.+..++...  ....+.+.|+|++|+|||+||+.+++......     .. .+++. ..    ...
T Consensus        16 ~~p~~~~gr~~~~~~l~~~l~~~~~~~~~~~vll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~~~~~i~-~~----~~~   90 (387)
T 2v1u_A           16 YVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVN-AR----HRE   90 (387)
T ss_dssp             CCCSCCTTCHHHHHHHHHTTGGGTSSCCCCCEEECBCTTSSHHHHHHHHHHHHHHHHHHHTCCEEEEEEE-TT----TSC
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHHhccCCCeEEEEEE-CC----cCC
Confidence            34588999999999999988642  34567899999999999999999999765432     22 23333 11    114


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCC--ChhHHHHHHHc--cCceEEEecCCCChhh-------hhhhhcCCCCC--CCCeEE
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTP--KIPQYIRDRLQ--RMKVFIVLDDVNKYGQ-------LEYFDGGLDRF--GPGSRI  317 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~--~~~~~l~~~L~--~kr~LLVLDdv~~~~~-------~~~l~~~l~~~--~~gsrI  317 (709)
                      ....+...++..++.........  +....+.+.+.  +++.+||||+++....       +..+.......  ..+..+
T Consensus        91 ~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlilDEi~~l~~~~~~~~~l~~l~~~~~~~~~~~~~~~  170 (387)
T 2v1u_A           91 TPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSL  170 (387)
T ss_dssp             SHHHHHHHHHHHHSCCCCSSCCCHHHHHHHHHHHHTTSCSEEEEEEETTTHHHHSTTHHHHHHHHHHGGGCC-----CEE
T ss_pred             CHHHHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHHhccCCeEEEEEccHhhhcccCCCChHHHhHhhchhhcCCCceEEE
Confidence            55667777887775432221111  13455555653  4588999999975432       22222222111  345678


Q ss_pred             EEEcCchhhh--------hhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhc---CCchHHHHH-
Q 005191          318 IVTTRDKTIL--------ERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAK---GNPLALQVL-  385 (709)
Q Consensus       318 IvTTR~~~v~--------~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~g---GlPLAL~~l-  385 (709)
                      |.||+.....        ..+ ....+.+++++.++..+++...+...........+..+.++++++   |+|..+..+ 
T Consensus       171 I~~t~~~~~~~~l~~~l~~r~-~~~~i~l~~l~~~~~~~il~~~~~~~~~~~~~~~~~~~~l~~~~~~~~G~~r~~~~~l  249 (387)
T 2v1u_A          171 VGITNSLGFVENLEPRVKSSL-GEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREHGDARRALDLL  249 (387)
T ss_dssp             EEECSCSTTSSSSCHHHHTTT-TSEECCBCCCCHHHHHHHHHHHHHHHBCTTTBCSSHHHHHHHHHHSSSCCHHHHHHHH
T ss_pred             EEEECCCchHhhhCHHHHhcC-CCeEEeeCCCCHHHHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHhccCHHHHHHHH
Confidence            8888765321        111 125789999999999999988753211111222345778888888   999433332 


Q ss_pred             hhhh---c--C---CChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccccccCc---chhHHHH----HH
Q 005191          386 GSSF---H--R---KSKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFNGD---DREHVMW----IL  450 (709)
Q Consensus       386 a~~L---~--~---~~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~~~---~~~~l~~----l~  450 (709)
                      ....   .  +   -+.+.+...++...       ...+..++..|++..+..+..++....+.   ....+.+    +.
T Consensus       250 ~~a~~~a~~~~~~~i~~~~v~~a~~~~~-------~~~~~~~~~~l~~~~~~~l~a~~~~~~~~~~~~~~~~~~~~~~~~  322 (387)
T 2v1u_A          250 RVAGEIAERRREERVRREHVYSARAEIE-------RDRVSEVVRTLPLHAKLVLLSIMMLEDGGRPASTGEIYERYKELT  322 (387)
T ss_dssp             HHHHHHHHHTTCSCBCHHHHHHHHHHHH-------HHHHHHHHHSSCHHHHHHHHHHHHHSSSSCCEEHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCCCcCHHHHHHHHHHHh-------hchHHHHHHcCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHH
Confidence            2221   1  1   13455555555432       23566778999999999888887443232   2332222    22


Q ss_pred             hcC---C---chHHHHHHHHHhCCCeEEe
Q 005191          451 NDD---Y---YSVQYGLNVLVNKSLIKIS  473 (709)
Q Consensus       451 ~~~---g---~~~~~~l~~L~~rsLI~~~  473 (709)
                      ...   .   ..+..+++.|...|++...
T Consensus       323 ~~~~~~~~~~~~~~~~l~~L~~~gli~~~  351 (387)
T 2v1u_A          323 STLGLEHVTLRRVSGIISELDMLGIVKSR  351 (387)
T ss_dssp             HHTTCCCCCHHHHHHHHHHHHHTTSEEEE
T ss_pred             HhcCCCCCCHHHHHHHHHHHHhCCCeEEE
Confidence            111   1   1356789999999999874

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens}

Probab=99.45  E-value=3.8e-14  Score=169.85  Aligned_cols=100  Identities=19%  Similarity=0.339  Sum_probs=89.6

Q ss_pred             CCcceEEecCCcccccCchH-HHHHHHHHh-----CCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchh
Q 005191            3 SCKYDVFLSFRGEDTRDNFL-SHLVVALQE-----KKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKW   75 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~-~~L~~~L~~-----~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~w   75 (709)
                      .++|||||||+++|  ..|| .+|...||.     .|+++|+++ |+.||+.+.++|.+||++|+++|+|+|++|+.|.|
T Consensus       668 ~~~yd~fisy~~~d--~~~v~~~l~~~Le~~~~~~~~~~~~~~~rd~~~G~~~~~~i~~~i~~sr~~i~vls~~~~~s~w  745 (844)
T 3j0a_A          668 MYKYDAYLCFSSKD--FTWVQNALLKHLDTQYSDQNRFNLCFEERDFVPGENRIANIQDAIWNSRKIVCLVSRHFLRDGW  745 (844)
T ss_dssp             CCCCSEEEECCSTT--HHHHHHTHHHHHHSTTTTTTCSCEECSSSSCCSSSCHHHHHHHHHHHSSEEEEEECTTHHHHTS
T ss_pred             ceeccEEEEeeCCc--HHHHHHHHHHHHhhccccCCceEEEEEccccCCCchHHHHHHHHHHHhCeEEEEeccccccChH
Confidence            46899999999999  5677 779999985     589999999 99999999999999999999999999999999999


Q ss_pred             hHHHHHHHHHhh-hhCCceeEeEEeecCCC
Q 005191           76 CLDELVKILKCH-KKNIQLVIPIFYNVDPS  104 (709)
Q Consensus        76 c~~El~~~~~~~-~~~~~~vlPvf~~v~p~  104 (709)
                      |..|+..++.+. ++.+++||||||+.-|.
T Consensus       746 c~~e~~~a~~~~~~~~~~~~i~i~~~~~~~  775 (844)
T 3j0a_A          746 CLEAFSYAQGRCLSDLNSALIMVVVGSLSQ  775 (844)
T ss_dssp             TTHHHHHHHSCCCCSSCTTEEEEESSCCCS
T ss_pred             HHHHHHHHHHHHHHhcCCcEEEEEeccCCh
Confidence            999999888765 55667899999985543

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=99.27  E-value=6.9e-11  Score=118.40  Aligned_cols=199  Identities=14%  Similarity=0.099  Sum_probs=119.5

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++||+..++.+..++..+. ..+.+.|+|++|+||||||+.+++.....+.....-.         ..... ..
T Consensus        19 p~~~~~~~g~~~~~~~l~~~l~~~~-~~~~~ll~G~~G~GKT~l~~~~~~~~~~~~~~~~~~~---------~~~~~-~~   87 (250)
T 1njg_A           19 PQTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGITATPC---------GVCDN-CR   87 (250)
T ss_dssp             CCSGGGCCSCHHHHHHHHHHHHHTC-CCSEEEEECSTTSCHHHHHHHHHHHHHCTTCSCSSCC---------SCSHH-HH
T ss_pred             CccHHHHhCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCC---------cccHH-HH
Confidence            3445679999999999999987542 2358899999999999999999987654321100000         00000 00


Q ss_pred             HHHHHhcCCCCCC--CCCChhHHHHHHH--------ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          258 QVLSKLLGENFDI--GTPKIPQYIRDRL--------QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       258 ~ll~~l~~~~~~~--~~~~~~~~l~~~L--------~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      .+...........  ........+.+.+        .+++.+|||||++.  ...++.+...+.....+..+|+||+...
T Consensus        88 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlviDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~t~~~~  167 (250)
T 1njg_A           88 EIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  167 (250)
T ss_dssp             HHHTTCCSSEEEEETTCGGGHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             HHhccCCcceEEecCcccccHHHHHHHHHHhhhchhcCCceEEEEECcccccHHHHHHHHHHHhcCCCceEEEEEeCChH
Confidence            0000000000000  0000111111111        24679999999964  4455666555544456788888887653


Q ss_pred             hhh-h-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          326 ILE-R-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       326 v~~-~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      ... . ......+++++++.++..+++...+.....  ....+..+.|++.|+|+|..+..+...+
T Consensus       168 ~~~~~l~~r~~~i~l~~l~~~e~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~G~~~~~~~~~~~~  231 (250)
T 1njg_A          168 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI--AHEPRALQLLARAAEGSLRDALSLTDQA  231 (250)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHTTC--CBCHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             hCCHHHHHHhhhccCCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            221 1 122368899999999999999887643221  1223567899999999999988876544

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=99.16  E-value=7.8e-10  Score=109.24  Aligned_cols=189  Identities=11%  Similarity=0.103  Sum_probs=116.6

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      |.....++||+..++.+.+++....  .+.+.|+|++|+|||+||+.+++.+... +...+...+...   . .....+.
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKT~l~~~l~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~   86 (226)
T 2chg_A           13 PRTLDEVVGQDEVIQRLKGYVERKN--IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD---E-RGIDVVR   86 (226)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGGGGGEEEEETTC---T-TCHHHHH
T ss_pred             CCCHHHHcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHhccccccceEEecccc---c-cChHHHH
Confidence            3445679999999999999997542  3348999999999999999999876443 222222221111   1 2222222


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchhhh-hh-cCc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKTIL-ER-YGT  332 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~v~-~~-~~~  332 (709)
                      . .+........             ....++.+|||||++..  ...+.+...+.....+.++|+||+..... .. ...
T Consensus        87 ~-~~~~~~~~~~-------------~~~~~~~vliiDe~~~l~~~~~~~l~~~l~~~~~~~~~i~~~~~~~~~~~~l~~r  152 (226)
T 2chg_A           87 H-KIKEFARTAP-------------IGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSR  152 (226)
T ss_dssp             H-HHHHHHTSCC-------------STTCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             H-HHHHHhcccC-------------CCccCceEEEEeChhhcCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcCHHHHHh
Confidence            2 1221111000             01246889999999653  34444544444345678888888765321 11 112


Q ss_pred             ceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhh
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSS  388 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~  388 (709)
                      ...+++++++.++..+++...+......  ...+..+.+++.++|+|..+..+...
T Consensus       153 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~g~~r~l~~~l~~  206 (226)
T 2chg_A          153 CAVFRFKPVPKEAMKKRLLEICEKEGVK--ITEDGLEALIYISGGDFRKAINALQG  206 (226)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CceeecCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            3478999999999999998876432211  22356778899999999976554443

>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=99.04  E-value=1.2e-09  Score=115.03  Aligned_cols=186  Identities=15%  Similarity=0.212  Sum_probs=113.7

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccc-eEEEeeecccccccCCHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEG-KYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~-~~~v~~~~~~~~~~~~l~~l  255 (709)
                      |.....++|++..++.+.+++..+.  .+.+.|+|++|+|||++|+.+++.+... +.. .+.+. .   +.. .+.. .
T Consensus        17 p~~~~~~~g~~~~~~~l~~~l~~~~--~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~-~---~~~-~~~~-~   88 (323)
T 1sxj_B           17 PQVLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELN-A---SDD-RGID-V   88 (323)
T ss_dssp             CSSGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEEC-T---TSC-CSHH-H
T ss_pred             CCCHHHHHCCHHHHHHHHHHHHcCC--CCeEEEECcCCCCHHHHHHHHHHHhcCCcccCCEEEec-C---ccc-cChH-H
Confidence            3445679999999999999987543  2338999999999999999999986432 222 12222 1   111 1221 2


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchhh-hhh-c
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKTI-LER-Y  330 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~v-~~~-~  330 (709)
                      .+.++..+.....             .+ .+++.++|+||++.  ....+.+...+.....++.+|+||+...- ... .
T Consensus        89 i~~~~~~~~~~~~-------------~~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~~~~~~l~~~l~  155 (323)
T 1sxj_B           89 VRNQIKHFAQKKL-------------HLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQ  155 (323)
T ss_dssp             HHTHHHHHHHBCC-------------CCCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHHhccc-------------cCCCCCceEEEEECcccCCHHHHHHHHHHHhccCCCceEEEEeCChhhchhHHH
Confidence            2222222210000             01 34588999999975  33444454444433567888888866432 111 1


Q ss_pred             CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH-HHHHh
Q 005191          331 GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA-LQVLG  386 (709)
Q Consensus       331 ~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA-L~~la  386 (709)
                      .....+++++++.++..+++...+......  ...+....+++.++|+|.. +..+.
T Consensus       156 sr~~~i~~~~~~~~~~~~~l~~~~~~~~~~--~~~~~~~~l~~~~~G~~r~a~~~l~  210 (323)
T 1sxj_B          156 SQCAILRYSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQAINNLQ  210 (323)
T ss_dssp             TTSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhceEEeecCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            223589999999999999998776322211  1235678899999999954 44443

>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=98.95  E-value=4.1e-08  Score=103.50  Aligned_cols=266  Identities=14%  Similarity=0.075  Sum_probs=156.2

Q ss_pred             CCCCCCccccchhhhHHHhhhhc---cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI---GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~---~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      |.....++|++..++.+...+..   .......+.|+|++|+|||+||+.+++.....|   .++. ....    .....
T Consensus         8 p~~~~~~ig~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~i~~~~~~~~---~~~~-~~~~----~~~~~   79 (324)
T 1hqc_A            8 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVTS-GPAI----EKPGD   79 (324)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHHHHHCSCCCCCEEECCTTCCCHHHHHHHHHHHTCCE---EEEC-TTTC----CSHHH
T ss_pred             cccHHHhhCHHHHHHHHHHHHHHHHccCCCCCcEEEECCCCCCHHHHHHHHHHHhCCCE---EEEe-cccc----CChHH
Confidence            34557899999999999888763   122346788999999999999999998764222   2222 1111    11111


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--hhhhhhcCCCCC------------------CCC
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--QLEYFDGGLDRF------------------GPG  314 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--~~~~l~~~l~~~------------------~~g  314 (709)
                      +    ...+..                . ..++.+|+||+++...  ....+...+...                  .++
T Consensus        80 l----~~~l~~----------------~-~~~~~~l~lDEi~~l~~~~~~~L~~~l~~~~~~~v~~~~~~~~~~~~~~~~  138 (324)
T 1hqc_A           80 L----AAILAN----------------S-LEEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  138 (324)
T ss_dssp             H----HHHHTT----------------T-CCTTCEEEETTTTSCCHHHHHHHHHHHHHSEEEECCSSSSSCCCEEEECCC
T ss_pred             H----HHHHHH----------------h-ccCCCEEEEECCcccccchHHHHHHHHHhhhhHHhccccccccccccCCCC
Confidence            1    111110                0 1346799999997532  222222111110                  124


Q ss_pred             eEEEEEcCchhhh-hhc--CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcC
Q 005191          315 SRIIVTTRDKTIL-ERY--GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHR  391 (709)
Q Consensus       315 srIIvTTR~~~v~-~~~--~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~  391 (709)
                      .++|.||...... ...  ....++.+++++.++..+++...+.....  ....+..+.++++++|+|..+..+...+..
T Consensus       139 ~~~i~~t~~~~~~~~~l~~R~~~~i~l~~~~~~e~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~  216 (324)
T 1hqc_A          139 FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV--RITEEAALEIGRRSRGTMRVAKRLFRRVRD  216 (324)
T ss_dssp             CEEEEEESCCSSCSCSTTTTCSCEEECCCCCHHHHHHHHHHHHHTTTC--CCCHHHHHHHHHHSCSCHHHHHHHHHHHTT
T ss_pred             EEEEEeCCCcccCCHHHHhcccEEEecCCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHccCCHHHHHHHHHHHHH
Confidence            5677666544211 111  12357899999999999998877633221  122456788999999999888776655432


Q ss_pred             C---------ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhcccc-c-cCcchhHHHHHHhcCCchHHHH
Q 005191          392 K---------SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACF-F-NGDDREHVMWILNDDYYSVQYG  460 (709)
Q Consensus       392 ~---------~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~F-p-~~~~~~~l~~l~~~~g~~~~~~  460 (709)
                      .         +.+.....+..            +......|++.++..+..+... . +......+.+.+..........
T Consensus       217 ~a~~~~~~~i~~~~~~~~~~~------------~~~~~~~l~~~e~~~i~~~~~~~~g~~~~~~~~a~~lgi~~~tl~~~  284 (324)
T 1hqc_A          217 FAQVAGEEVITRERALEALAA------------LGLDELGLEKRDREILEVLILRFGGGPVGLATLATALSEDPGTLEEV  284 (324)
T ss_dssp             TSTTTSCSCCCHHHHHHHHHH------------HTCCTTCCCHHHHHHHHHHHHHSCSSCCCHHHHHHHTTSCHHHHHHH
T ss_pred             HHHHhcCCCCCHHHHHHHHHH------------hcccccCCCHHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHH
Confidence            1         12222222222            2223456788787777766543 2 2345777777765554445555


Q ss_pred             HHH-HHhCCCeEEeCCEEEEcHHHHHH
Q 005191          461 LNV-LVNKSLIKISYNKLQMHDLLQEM  486 (709)
Q Consensus       461 l~~-L~~rsLI~~~~~~~~mHdlvr~~  486 (709)
                      ++. +++.++|+.......+-+...++
T Consensus       285 l~~~~i~~~li~~~~~g~~~~~~~~~~  311 (324)
T 1hqc_A          285 HEPYLIRQGLLKRTPRGRVPTELAYRH  311 (324)
T ss_dssp             THHHHHHTTSEEEETTEEEECHHHHHH
T ss_pred             HhHHHHHhcchhcCCccceecHHHHHH
Confidence            655 88999998876555665555544

>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=98.91  E-value=1e-08  Score=107.93  Aligned_cols=190  Identities=16%  Similarity=0.165  Sum_probs=114.5

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe-eecccccccCCHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA-NVREESEKCGGLVHLR  256 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~-~~~~~~~~~~~l~~l~  256 (709)
                      |.....++|++..++.+.+++..+  ..+.+.|+|++|+|||++|+.+++.+........++. +....    .+.. ..
T Consensus        21 p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~la~~l~~~l~~~~~~~~~~~~~~~~~----~~~~-~~   93 (327)
T 1iqp_A           21 PQRLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDE----RGIN-VI   93 (327)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCH----HHHH-TT
T ss_pred             CCCHHHhhCCHHHHHHHHHHHHcC--CCCeEEEECcCCCCHHHHHHHHHHHhcCCcccCceEEeecccc----CchH-HH
Confidence            344567999999999999998754  3334899999999999999999997643321111111 11110    0000 00


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchhh-hhhc-Cc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKTI-LERY-GT  332 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~v-~~~~-~~  332 (709)
                      ...+.......             ....+++.++|+||++..  +..+.+...+.....++++|+||..... .... ..
T Consensus        94 ~~~~~~~~~~~-------------~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~~~l~sr  160 (327)
T 1iqp_A           94 REKVKEFARTK-------------PIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  160 (327)
T ss_dssp             HHHHHHHHHSC-------------CGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHHhhC-------------CcCCCCCeEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCCccccCHHHHhh
Confidence            11111110000             001256789999999753  4455555444444567888888876532 1111 12


Q ss_pred             ceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhh
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSF  389 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L  389 (709)
                      ...+++.+++.++..+++...+.....  ....+..+.|++.++|+|..+..+...+
T Consensus       161 ~~~~~~~~l~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~~~~~l~~~  215 (327)
T 1iqp_A          161 CAIFRFRPLRDEDIAKRLRYIAENEGL--ELTEEGLQAILYIAEGDMRRAINILQAA  215 (327)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTC--EECHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             CcEEEecCCCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            247899999999999998876632221  1234567889999999998765554433

>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=98.75  E-value=1.9e-07  Score=97.84  Aligned_cols=182  Identities=12%  Similarity=0.129  Sum_probs=113.4

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      |.....++|++..++.+.+++..+  ..+.+.|+|++|+|||++|+.+++.+.. .+...+...+....... ..     
T Consensus        13 p~~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKt~la~~l~~~l~~~~~~~~~~~~~~~~~~~~-~~-----   84 (319)
T 2chq_A           13 PRTLDEVVGQDEVIQRLKGYVERK--NIPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGI-DV-----   84 (319)
T ss_dssp             CSSGGGSCSCHHHHHHHHTTTTTT--CCCCEEEESSSSSSHHHHHHHHHHHHHTTCHHHHCEEEETTSTTCT-TT-----
T ss_pred             CCCHHHHhCCHHHHHHHHHHHhCC--CCCeEEEECcCCcCHHHHHHHHHHHhcCCcccCCeEEEeCccccCh-HH-----
Confidence            334567999999999999988754  2333899999999999999999987632 22111111111110000 01     


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHH------ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hh
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRL------QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-IL  327 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L------~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~  327 (709)
                                        ....+....      .+++.++|+|+++.  .+..+.+...+.....+.++|+||.... +.
T Consensus        85 ------------------~~~~~~~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~L~~~le~~~~~~~~i~~~~~~~~l~  146 (319)
T 2chq_A           85 ------------------VRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYVSRII  146 (319)
T ss_dssp             ------------------SSHHHHHHHHSCCSSSCCCEEEEEETGGGSCHHHHHTTGGGTSSSSSSEEEEEEESCGGGSC
T ss_pred             ------------------HHHHHHHHHhcCCCCCCCceEEEEeCCCcCCHHHHHHHHHHHHhcCCCCeEEEEeCChhhcc
Confidence                              111122211      24578999999964  3445566666655556788888876553 11


Q ss_pred             hh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          328 ER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       328 ~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      .. ......+++.+++.++..+++...+.....  ....+..+.+++.++|++..+.....
T Consensus       147 ~~l~sr~~~i~~~~~~~~~~~~~l~~~~~~~~~--~i~~~~l~~l~~~~~G~~r~~~~~l~  205 (319)
T 2chq_A          147 EPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGV--KITEDGLEALIYISGGDFRKAINALQ  205 (319)
T ss_dssp             HHHHTTCEEEECCCCCHHHHHHHHHHHHHTTCC--CBCHHHHHHHHHTTTTCHHHHHHHHH
T ss_pred             hHHHhhCeEEEecCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence            11 122358899999999999999877632221  12245678888999999986654433

>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=98.72  E-value=1.1e-07  Score=101.99  Aligned_cols=196  Identities=13%  Similarity=0.102  Sum_probs=114.9

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQ  258 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~  258 (709)
                      .....++|++..++.+...+..+. ..+.+.|+|++|+||||+|+.+++.+.......         ........ ....
T Consensus        13 ~~~~~~vg~~~~~~~L~~~l~~~~-~~~~~ll~G~~G~GKT~la~~la~~l~~~~~~~---------~~~~~~~~-~~~~   81 (373)
T 1jr3_A           13 QTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATPCGVCD-NCRE   81 (373)
T ss_dssp             CSTTTSCSCHHHHHHHHHHHHHTC-CCSEEEEESCTTSSHHHHHHHHHHHHSCTTCSC---------SSCCSSSH-HHHH
T ss_pred             CchhhccCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCC---------CCCCcccH-HHHH
Confidence            345679999999999999987542 245788999999999999999998764321100         00000000 0111


Q ss_pred             HHHHhcCC-----CCCCCCCChhHHHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-
Q 005191          259 VLSKLLGE-----NFDIGTPKIPQYIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-  325 (709)
Q Consensus       259 ll~~l~~~-----~~~~~~~~~~~~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-  325 (709)
                      +.......     .......+....+.+.+     .+++.++|+||++.  ....+.+...+.....+..+|++|.... 
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~vliiDe~~~l~~~~~~~Ll~~le~~~~~~~~Il~~~~~~~  161 (373)
T 1jr3_A           82 IEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQK  161 (373)
T ss_dssp             HHTSCCSSCEEEETTCSCCSSCHHHHHHHTTSCCSSSSSEEEEEECGGGSCHHHHHHHHHHHHSCCSSEEEEEEESCGGG
T ss_pred             HhccCCCceEEecccccCCHHHHHHHHHHHhhccccCCeEEEEEECcchhcHHHHHHHHHHHhcCCCceEEEEEeCChHh
Confidence            11000000     00001111223333333     24578999999964  3445555554444455677777776542 


Q ss_pred             hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          326 ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       326 v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      +... ......+++.+++.++..+++...+.....  ....+....|++.++|+|..+..+..
T Consensus       162 l~~~l~sr~~~i~~~~l~~~~~~~~l~~~~~~~~~--~~~~~a~~~l~~~~~G~~r~~~~~l~  222 (373)
T 1jr3_A          162 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI--AHEPRALQLLARAAEGSLRDALSLTD  222 (373)
T ss_dssp             SCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC--CBCHHHHHHHHHHSSSCHHHHHHHHH
T ss_pred             CcHHHHhheeEeeCCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            1111 122368899999999999999876632221  11235578899999999998776553

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=98.58  E-value=3.2e-07  Score=95.96  Aligned_cols=164  Identities=9%  Similarity=0.004  Sum_probs=98.7

Q ss_pred             CccccchhhhHHHhhhhc--cCCCceEEEEEccCCCchhHHHHHHHHHhhhccc-----c--eEEEeeecccccccCCHH
Q 005191          183 GLIGLESHVEQVRSLLAI--GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-----G--KYFMANVREESEKCGGLV  253 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~--~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-----~--~~~v~~~~~~~~~~~~l~  253 (709)
                      .+.||++|+++|...|..  ..+....+.|+|++|+|||++++.+++++.....     .  .+++...     ...+..
T Consensus        21 ~L~~Re~E~~~i~~~L~~~i~~~~~~~lli~GpPGTGKT~~v~~v~~~L~~~~~~~~~~~~~~v~INc~-----~~~t~~   95 (318)
T 3te6_A           21 LLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDAL-----ELAGMD   95 (318)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHTTCCCEEEEECCCSHHHHHHHHHHHHHHHHTTTTTSSCCEEEEEEETT-----CCC--H
T ss_pred             ccCCHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHHHHHhhhccCCceEEEEEecc-----ccCCHH
Confidence            388999999999988864  2345778899999999999999999998754321     1  2233311     113445


Q ss_pred             HHHHHHHHHhcCCCCCCCCCChhHHHHHHH------ccCceEEEecCCCChhhhhhhhcCCCC---CCCCeEEEEEcCch
Q 005191          254 HLRNQVLSKLLGENFDIGTPKIPQYIRDRL------QRMKVFIVLDDVNKYGQLEYFDGGLDR---FGPGSRIIVTTRDK  324 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L------~~kr~LLVLDdv~~~~~~~~l~~~l~~---~~~gsrIIvTTR~~  324 (709)
                      .+...++.++.+.....  ......+.+.+      .+++++++||+++...+-+.+...+.+   ......||.++...
T Consensus        96 ~~~~~I~~~L~g~~~~~--~~~~~~L~~~f~~~~~~~~~~~ii~lDE~d~l~~q~~L~~l~~~~~~~~s~~~vI~i~n~~  173 (318)
T 3te6_A           96 ALYEKIWFAISKENLCG--DISLEALNFYITNVPKAKKRKTLILIQNPENLLSEKILQYFEKWISSKNSKLSIICVGGHN  173 (318)
T ss_dssp             HHHHHHHHHHSCCC--C--CCCHHHHHHHHHHSCGGGSCEEEEEEECCSSSCCTHHHHHHHHHHHCSSCCEEEEEECCSS
T ss_pred             HHHHHHHHHhcCCCCCc--hHHHHHHHHHHHHhhhccCCceEEEEecHHHhhcchHHHHHHhcccccCCcEEEEEEecCc
Confidence            67778888885443221  12233333332      356899999999764322222211111   11223344444332


Q ss_pred             hh----h-----hhcCcceEEEecCCChHHHHHHhhhcc
Q 005191          325 TI----L-----ERYGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       325 ~v----~-----~~~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      +.    +     ..+ ....+.+++++.+|-.+++.+++
T Consensus       174 d~~~~~L~~~v~SR~-~~~~i~F~pYt~~el~~Il~~Rl  211 (318)
T 3te6_A          174 VTIREQINIMPSLKA-HFTEIKLNKVDKNELQQMIITRL  211 (318)
T ss_dssp             CCCHHHHHTCHHHHT-TEEEEECCCCCHHHHHHHHHHHH
T ss_pred             ccchhhcchhhhccC-CceEEEeCCCCHHHHHHHHHHHH
Confidence            11    1     122 12578999999999999988776

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=98.57  E-value=1.1e-07  Score=95.14  Aligned_cols=176  Identities=12%  Similarity=0.094  Sum_probs=101.1

Q ss_pred             CCCCccccc---hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHH
Q 005191          180 DSDGLIGLE---SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       180 ~~~~~vGR~---~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      ..+.|+|++   ..++.+..+....  ..+.+.|+|++|+|||+||+.+++..........++. .......   +    
T Consensus        26 ~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~ll~G~~G~GKT~la~~l~~~~~~~~~~~~~~~-~~~~~~~---~----   95 (242)
T 3bos_A           26 TFTSYYPAAGNDELIGALKSAASGD--GVQAIYLWGPVKSGRTHLIHAACARANELERRSFYIP-LGIHASI---S----   95 (242)
T ss_dssp             STTTSCC--CCHHHHHHHHHHHHTC--SCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE-GGGGGGS---C----
T ss_pred             ChhhccCCCCCHHHHHHHHHHHhCC--CCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-HHHHHHH---H----
Confidence            446788743   4455555555432  4578899999999999999999998765533444544 2111110   0    


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--h--hhhhhcCCCCC-CCC-eEEEEEcCchh-----
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--Q--LEYFDGGLDRF-GPG-SRIIVTTRDKT-----  325 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--~--~~~l~~~l~~~-~~g-srIIvTTR~~~-----  325 (709)
                                      .+..    +.+ .++.+|||||++...  .  .+.+...+... ..+ .++|+||+...     
T Consensus        96 ----------------~~~~----~~~-~~~~vliiDe~~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~~~~~~~~~~~~  154 (242)
T 3bos_A           96 ----------------TALL----EGL-EQFDLICIDDVDAVAGHPLWEEAIFDLYNRVAEQKRGSLIVSASASPMEAGF  154 (242)
T ss_dssp             ----------------GGGG----TTG-GGSSEEEEETGGGGTTCHHHHHHHHHHHHHHHHHCSCEEEEEESSCTTTTTC
T ss_pred             ----------------HHHH----Hhc-cCCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCCeEEEEcCCCHHHHHH
Confidence                            0000    011 346799999996432  1  22232221110 112 24777776431     


Q ss_pred             ----hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhh
Q 005191          326 ----ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSS  388 (709)
Q Consensus       326 ----v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~  388 (709)
                          +...+.....+++++++.++..+++...+.....  ....+..+.+++.++|++-.+..+...
T Consensus       155 ~~~~l~~r~~~~~~i~l~~~~~~~~~~~l~~~~~~~~~--~~~~~~~~~l~~~~~g~~r~l~~~l~~  219 (242)
T 3bos_A          155 VLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGL--QLPEDVGRFLLNRMARDLRTLFDVLDR  219 (242)
T ss_dssp             CCHHHHHHHHHSEEEECCCCCGGGHHHHHHHHHHHTTC--CCCHHHHHHHHHHTTTCHHHHHHHHHH
T ss_pred             hhhhhhhHhhcCceEEeCCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHccCCHHHHHHHHHH
Confidence                1111112268999999999999999877632221  122456778889999998776655443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=98.55  E-value=1.7e-06  Score=91.66  Aligned_cols=254  Identities=16%  Similarity=0.132  Sum_probs=146.5

Q ss_pred             CCCCCccccchhhhHHHhhhhcc---CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIG---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      .....++|++..++.+..++...   ......+.|+|++|+|||+||+.+++.....|   +.+. ....    .....+
T Consensus        26 ~~~~~iiG~~~~~~~l~~~l~~~~~~~~~~~~vll~G~~GtGKT~la~~ia~~~~~~~---~~~~-~~~~----~~~~~~   97 (338)
T 3pfi_A           26 SNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMSANI---KTTA-APMI----EKSGDL   97 (338)
T ss_dssp             CSGGGCCSCHHHHHHHHHHHHHHHHTTSCCCCEEEECSTTSSHHHHHHHHHHHTTCCE---EEEE-GGGC----CSHHHH
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHhcCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe---EEec-chhc----cchhHH
Confidence            34567999999999999988742   23456789999999999999999988754332   1111 1110    111111


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCC------------------CCCe
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRF------------------GPGS  315 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~------------------~~gs  315 (709)
                       ..++..                     ..++.+|+||+++..  .....+...+...                  .++.
T Consensus        98 -~~~~~~---------------------~~~~~vl~lDEi~~l~~~~~~~Ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~  155 (338)
T 3pfi_A           98 -AAILTN---------------------LSEGDILFIDEIHRLSPAIEEVLYPAMEDYRLDIIIGSGPAAQTIKIDLPKF  155 (338)
T ss_dssp             -HHHHHT---------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCC---------CCCCCCCCCCC
T ss_pred             -HHHHHh---------------------ccCCCEEEEechhhcCHHHHHHHHHHHHhccchhhcccCccccceecCCCCe
Confidence             111110                     135679999999642  2222222211110                  1234


Q ss_pred             EEEEEcCchhh-hhhc--CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhc--
Q 005191          316 RIIVTTRDKTI-LERY--GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFH--  390 (709)
Q Consensus       316 rIIvTTR~~~v-~~~~--~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~--  390 (709)
                      .+|.+|..... ....  .....+.+++++.++..+++...+....  .....+..+.+++.+.|+|-.+..+...+.  
T Consensus       156 ~~i~atn~~~~l~~~L~~R~~~~i~l~~~~~~e~~~il~~~~~~~~--~~~~~~~~~~l~~~~~G~~r~l~~~l~~~~~~  233 (338)
T 3pfi_A          156 TLIGATTRAGMLSNPLRDRFGMQFRLEFYKDSELALILQKAALKLN--KTCEEKAALEIAKRSRSTPRIALRLLKRVRDF  233 (338)
T ss_dssp             EEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT--CEECHHHHHHHHHTTTTCHHHHHHHHHHHHHH
T ss_pred             EEEEeCCCccccCHHHHhhcCEEeeCCCcCHHHHHHHHHHHHHhcC--CCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            56666654321 1111  1236899999999999999887763222  122345677888899999966655443321  


Q ss_pred             ----CC---ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhcccccc-CcchhHHHHHHhcCCchHHHHHH
Q 005191          391 ----RK---SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIACFFN-GDDREHVMWILNDDYYSVQYGLN  462 (709)
Q Consensus       391 ----~~---~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~Fp~-~~~~~~l~~l~~~~g~~~~~~l~  462 (709)
                          +.   +.+.....+..            +..+...++...+..+..++-... ......+...+..........++
T Consensus       234 a~~~~~~~i~~~~~~~~~~~------------~~~~~~~l~~~e~~~l~~l~~~~~~~~~~~~~a~~lg~~~~tl~~~l~  301 (338)
T 3pfi_A          234 ADVNDEEIITEKRANEALNS------------LGVNELGFDAMDLRYLELLTAAKQKPIGLASIAAALSEDENTIEDVIE  301 (338)
T ss_dssp             HHHTTCSEECHHHHHHHHHH------------HTCCTTCCCHHHHHHHHHHHHSCSCCBCHHHHHHHTTCCHHHHHHTTH
T ss_pred             HHhhcCCccCHHHHHHHHHH------------hCCcccCCCHHHHHHHHHHHHhcCCCchHHHHHHHhCCCHHHHHHHHh
Confidence                11   12222222222            223344566665666666655422 23577777777665555666677


Q ss_pred             -HHHhCCCeEEeCCE
Q 005191          463 -VLVNKSLIKISYNK  476 (709)
Q Consensus       463 -~L~~rsLI~~~~~~  476 (709)
                       .|++.++|......
T Consensus       302 ~~l~~~gli~~~~~g  316 (338)
T 3pfi_A          302 PYLLANGYIERTAKG  316 (338)
T ss_dssp             HHHHHTTSEEEETTE
T ss_pred             HHHHHcCceecCCCc
Confidence             89999999887433

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=98.54  E-value=1.3e-06  Score=90.08  Aligned_cols=183  Identities=20%  Similarity=0.237  Sum_probs=105.5

Q ss_pred             CCCCCCCccccchhhhHHHhhhhcc-----------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccc
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIG-----------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREE  245 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~  245 (709)
                      +......++|.+..+++|.+.+...           ....+.+.|+|++|+|||+||+.+++.....|    ........
T Consensus        12 ~~~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ll~G~~GtGKT~la~~la~~~~~~~----~~v~~~~~   87 (285)
T 3h4m_A           12 PNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATF----IRVVGSEL   87 (285)
T ss_dssp             CCCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHCCCCCSEEEEESSSSSSHHHHHHHHHHHTTCEE----EEEEGGGG
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE----EEEehHHH
Confidence            3345577999999999998877431           13456789999999999999999998764322    11111111


Q ss_pred             ccccCC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh----------------hhhhhhhcCC
Q 005191          246 SEKCGG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY----------------GQLEYFDGGL  308 (709)
Q Consensus       246 ~~~~~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~----------------~~~~~l~~~l  308 (709)
                      .....+ ....                   ....+.......+.+|+||+++..                ..+..+...+
T Consensus        88 ~~~~~~~~~~~-------------------~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~l~~ll~~~  148 (285)
T 3h4m_A           88 VKKFIGEGASL-------------------VKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEM  148 (285)
T ss_dssp             CCCSTTHHHHH-------------------HHHHHHHHHHTCSEEEEEETTHHHHBCCSSSCCGGGGHHHHHHHHHHHHH
T ss_pred             HHhccchHHHH-------------------HHHHHHHHHHcCCeEEEEECHHHhcccCccccCCccHHHHHHHHHHHHHh
Confidence            111000 0000                   111222233456789999999542                1122222221


Q ss_pred             C--CCCCCeEEEEEcCchhhhh-----hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcC-Cch
Q 005191          309 D--RFGPGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKG-NPL  380 (709)
Q Consensus       309 ~--~~~~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gG-lPL  380 (709)
                      .  ....+..||.||.......     .......+.+++++.++..+++...+.......+   .....++..+.| .|-
T Consensus       149 ~~~~~~~~~~vI~ttn~~~~l~~~l~~~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~~~---~~~~~l~~~~~g~~~~  225 (285)
T 3h4m_A          149 DGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAED---VNLEEIAKMTEGCVGA  225 (285)
T ss_dssp             HTTCSSSSEEEEEECSCGGGBCHHHHSTTSEEEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHHCTTCCHH
T ss_pred             hCCCCCCCEEEEEeCCCchhcCHHHcCCCcCCeEEEECCCCHHHHHHHHHHHHhcCCCCCc---CCHHHHHHHcCCCCHH
Confidence            1  1134677888887653322     1123457899999999999999877633221111   124667777777 454


Q ss_pred             HHHHH
Q 005191          381 ALQVL  385 (709)
Q Consensus       381 AL~~l  385 (709)
                      .|..+
T Consensus       226 ~i~~l  230 (285)
T 3h4m_A          226 ELKAI  230 (285)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            55443

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=98.54  E-value=2.6e-07  Score=88.53  Aligned_cols=50  Identities=20%  Similarity=0.260  Sum_probs=42.2

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....++||+++++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~--~~~~~ll~G~~G~GKT~l~~~~~~~~~~   69 (195)
T 1jbk_A           20 KLDPVIGRDEEIRRTIQVLQRR--TKNNPVLIGEPGVGKTAIVEGLAQRIIN   69 (195)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHhcC--CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            4567999999999999998753  3466889999999999999999987644

>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=98.47  E-value=4.9e-06  Score=85.31  Aligned_cols=197  Identities=18%  Similarity=0.121  Sum_probs=102.7

Q ss_pred             CCccccchhhhHHHh-------hhhc-cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHH
Q 005191          182 DGLIGLESHVEQVRS-------LLAI-GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLV  253 (709)
Q Consensus       182 ~~~vGR~~el~~L~~-------~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~  253 (709)
                      ..++|....++.+..       .+.. .....+.+.|+|++|+|||+||+.+++.....|   +.+........  ....
T Consensus        33 ~~~i~~~~~~~~i~~~~~~l~~~l~~~~~~~~~~vLl~G~~GtGKT~la~~ia~~~~~~~---~~i~~~~~~~g--~~~~  107 (272)
T 1d2n_A           33 NGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPF---IKICSPDKMIG--FSET  107 (272)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTCSE---EEEECGGGCTT--CCHH
T ss_pred             cCCCCccHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCE---EEEeCHHHhcC--CchH
Confidence            467888877666665       2221 234568899999999999999999998743221   11211100000  0000


Q ss_pred             HHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh------------hhhhhhhcCCC---CCCCCeEEE
Q 005191          254 HLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY------------GQLEYFDGGLD---RFGPGSRII  318 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~------------~~~~~l~~~l~---~~~~gsrII  318 (709)
                      .....                ....+......++.+|+||+++..            ..++.+...+.   ..+....||
T Consensus       108 ~~~~~----------------~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~l~~L~~~~~~~~~~~~~~~ii  171 (272)
T 1d2n_A          108 AKCQA----------------MKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLII  171 (272)
T ss_dssp             HHHHH----------------HHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEE
T ss_pred             HHHHH----------------HHHHHHHHHhcCCcEEEEEChhhhhccCCCChhHHHHHHHHHHHHhcCccCCCCCEEEE
Confidence            00000                111222233456889999998542            11222322222   123445577


Q ss_pred             EEcCchhhhhh---cC-cceEEEecCCCh-HHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc------hHHHHHhh
Q 005191          319 VTTRDKTILER---YG-THRIYEVEGLNC-NEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP------LALQVLGS  387 (709)
Q Consensus       319 vTTR~~~v~~~---~~-~~~~~~L~~L~~-~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP------LAL~~la~  387 (709)
                      .||........   .+ ....+.+++++. ++..+++....    ..+   .+....+++.+.|.+      -++..+-.
T Consensus       172 ~ttn~~~~l~~~~l~~rf~~~i~~p~l~~r~~i~~i~~~~~----~~~---~~~~~~l~~~~~g~~~~g~ir~l~~~l~~  244 (272)
T 1d2n_A          172 GTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG----NFK---DKERTTIAQQVKGKKVWIGIKKLLMLIEM  244 (272)
T ss_dssp             EEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT----CSC---HHHHHHHHHHHTTSEEEECHHHHHHHHHH
T ss_pred             EecCChhhcchhhhhcccceEEcCCCccHHHHHHHHHHhcC----CCC---HHHHHHHHHHhcCCCccccHHHHHHHHHH
Confidence            78877644332   11 246788999988 55566554421    111   345778888888842      22222222


Q ss_pred             hhcCCChhhHHHHHHHhhc
Q 005191          388 SFHRKSKPDWVNTLNNLKR  406 (709)
Q Consensus       388 ~L~~~~~~ew~~~L~~L~~  406 (709)
                      .........+..+++.+..
T Consensus       245 a~~~~~~~~~~~~~~~l~~  263 (272)
T 1d2n_A          245 SLQMDPEYRVRKFLALLRE  263 (272)
T ss_dssp             HTTSCGGGHHHHHHHHHHH
T ss_pred             HhhhchHHHHHHHHHHHHH
Confidence            2222334556666655543

>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=98.46  E-value=2.4e-06  Score=90.81  Aligned_cols=197  Identities=13%  Similarity=0.118  Sum_probs=111.7

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh--cccceEEEeeecccccccCCHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ--KFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~--~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      |.....++|++..++.+..++..+..  ..+.|+|++|+||||+|+.+++.+..  .+...+...+....    .+...+
T Consensus        33 p~~~~~i~g~~~~~~~l~~~l~~~~~--~~~ll~G~~G~GKT~la~~la~~l~~~~~~~~~~~~~~~~~~----~~~~~~  106 (353)
T 1sxj_D           33 PKNLDEVTAQDHAVTVLKKTLKSANL--PHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDE----RGISIV  106 (353)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTTC--CCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSC----CCHHHH
T ss_pred             CCCHHHhhCCHHHHHHHHHHHhcCCC--CEEEEECCCCCCHHHHHHHHHHHhCCCcccccceEEEccccc----cchHHH
Confidence            34457799999999999999875432  23889999999999999999987642  22222221111110    122222


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchh-hhhhc-C
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKT-ILERY-G  331 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~~-~  331 (709)
                       .+........... .....  .....-..++-+|++|+++..  .....+...+.......++|++|.... +.... .
T Consensus       107 -~~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~vliiDE~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~l~s  182 (353)
T 1sxj_D          107 -REKVKNFARLTVS-KPSKH--DLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLAS  182 (353)
T ss_dssp             -TTHHHHHHHSCCC-CCCTT--HHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             -HHHHHHHhhhccc-ccchh--hcccCCCCCceEEEEECCCccCHHHHHHHHHHHHhcCCCceEEEEeCchhhCcchhhc
Confidence             2222222110000 00000  001111235579999999642  333444443333345667777775442 21111 1


Q ss_pred             cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       332 ~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                      ....+.+.+++.++..+.+...+.....  ....+..+.|++.++|+|..+..+.
T Consensus       183 R~~~i~~~~~~~~~~~~~l~~~~~~~~~--~i~~~~l~~l~~~~~G~~r~~~~~l  235 (353)
T 1sxj_D          183 QCSKFRFKALDASNAIDRLRFISEQENV--KCDDGVLERILDISAGDLRRGITLL  235 (353)
T ss_dssp             HSEEEECCCCCHHHHHHHHHHHHHTTTC--CCCHHHHHHHHHHTSSCHHHHHHHH
T ss_pred             cCceEEeCCCCHHHHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2247899999999999998876632221  1224567889999999998655443

>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=98.43  E-value=2.5e-06  Score=96.03  Aligned_cols=191  Identities=14%  Similarity=0.136  Sum_probs=104.3

Q ss_pred             CCCCCCccccchhhhHHHhhhhccC---------------CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeee
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGL---------------PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV  242 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~---------------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~  242 (709)
                      |.....++|++..+++|.+++....               +..+.+.|+|++|+|||++|+.+++.+.  +  .+...+.
T Consensus        35 P~~~~dliG~~~~~~~L~~~l~~~~~~~~~~~~~~g~~~~~~~~~lLL~GppGtGKTtla~~la~~l~--~--~~i~in~  110 (516)
T 1sxj_A           35 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG--Y--DILEQNA  110 (516)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT--C--EEEEECT
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHhHhhchhhccccCccCCCCCcEEEEECCCCCCHHHHHHHHHHHcC--C--CEEEEeC
Confidence            3445679999999999999986410               1347899999999999999999999862  1  1211111


Q ss_pred             cccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHH--HHccCceEEEecCCCChh-----hhhhhhcCCCCCCCCe
Q 005191          243 REESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD--RLQRMKVFIVLDDVNKYG-----QLEYFDGGLDRFGPGS  315 (709)
Q Consensus       243 ~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~--~L~~kr~LLVLDdv~~~~-----~~~~l~~~l~~~~~gs  315 (709)
                      ...    .. .......+....... ..  ........+  ...+++.+|+||+++...     .+..+...+..  .+.
T Consensus       111 s~~----~~-~~~~~~~i~~~~~~~-~~--~~~~~~~~~~~~~~~~~~vliIDEid~l~~~~~~~l~~L~~~l~~--~~~  180 (516)
T 1sxj_A          111 SDV----RS-KTLLNAGVKNALDNM-SV--VGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRK--TST  180 (516)
T ss_dssp             TSC----CC-HHHHHHTGGGGTTBC-CS--TTTTTC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHH--CSS
T ss_pred             CCc----ch-HHHHHHHHHHHhccc-cH--HHHHhhhhhhhhccCCCeEEEEECCCccchhhHHHHHHHHHHHHh--cCC
Confidence            111    11 112222222111100 00  000000000  113568899999996421     12333322221  233


Q ss_pred             EEEEEcCchh---hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          316 RIIVTTRDKT---ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       316 rIIvTTR~~~---v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      .||+++.+..   +.........+.+++++.++..+.+...+......  ...+....|++.++|.+-.+..
T Consensus       181 ~iIli~~~~~~~~l~~l~~r~~~i~f~~~~~~~~~~~L~~i~~~~~~~--i~~~~l~~la~~s~GdiR~~i~  250 (516)
T 1sxj_A          181 PLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFK--LDPNVIDRLIQTTRGDIRQVIN  250 (516)
T ss_dssp             CEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHTTTCHHHHHH
T ss_pred             CEEEEEcCCCCccchhhHhceEEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHHcCCcHHHHHH
Confidence            4555554321   22222234678999999999999887766432211  1124577889999996654433

>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=98.43  E-value=5.2e-06  Score=88.81  Aligned_cols=203  Identities=13%  Similarity=0.142  Sum_probs=111.2

Q ss_pred             hhhhHHHHHHHHHhhhhcccCCCCCCCCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHH
Q 005191          156 DAKLVKEITADILEKLEKLSAAISDSDGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVV  225 (709)
Q Consensus       156 e~~~i~~i~~~i~~~l~~~~~~~~~~~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v  225 (709)
                      +...++.+...+...     .++..-..++|.+..++.|.+.+..          .....+.+.|+|++|+|||+||+.+
T Consensus        63 ~~~~~~~i~~~i~~~-----~~~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~ai  137 (357)
T 3d8b_A           63 EPKMIELIMNEIMDH-----GPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCI  137 (357)
T ss_dssp             CHHHHHHHHHHTBCC-----SCCCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGSCCSEEEEESSTTSSHHHHHHHH
T ss_pred             ChHHHHHHHhhcccC-----CCCCCHHHhCChHHHHHHHHHHHHHHhhChHhHhhccCCCceEEEECCCCCCHHHHHHHH
Confidence            334444444444332     2334456799999999999887742          1123568899999999999999999


Q ss_pred             HHHhhhcccceEEEeeecccccccCC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh------
Q 005191          226 FNQFSQKFEGKYFMANVREESEKCGG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY------  298 (709)
Q Consensus       226 ~~~~~~~f~~~~~v~~~~~~~~~~~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~------  298 (709)
                      ++.....    ++..+.........+ ....                   ....+......++.+|+||+++..      
T Consensus       138 a~~~~~~----~~~i~~~~l~~~~~g~~~~~-------------------~~~~~~~a~~~~~~vl~iDEid~l~~~~~~  194 (357)
T 3d8b_A          138 ASQSGAT----FFSISASSLTSKWVGEGEKM-------------------VRALFAVARCQQPAVIFIDEIDSLLSQRGD  194 (357)
T ss_dssp             HHHTTCE----EEEEEGGGGCCSSTTHHHHH-------------------HHHHHHHHHHTCSEEEEEETHHHHTBC---
T ss_pred             HHHcCCe----EEEEehHHhhccccchHHHH-------------------HHHHHHHHHhcCCeEEEEeCchhhhccCCC
Confidence            9875322    222222211111000 0000                   111112222356789999999432      


Q ss_pred             -------hhhhhhhcCCC----CCCCCeEEEEEcCchhhhh-h--cCcceEEEecCCChHHHHHHhhhcccccCCCChhh
Q 005191          299 -------GQLEYFDGGLD----RFGPGSRIIVTTRDKTILE-R--YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDL  364 (709)
Q Consensus       299 -------~~~~~l~~~l~----~~~~gsrIIvTTR~~~v~~-~--~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~  364 (709)
                             .....++..+.    ....+..||.||....... .  -.....+.++..+.++..+++...+......  ..
T Consensus       195 ~~~~~~~~~~~~lL~~l~~~~~~~~~~v~vI~atn~~~~l~~~l~~Rf~~~i~i~~p~~~~r~~il~~~~~~~~~~--l~  272 (357)
T 3d8b_A          195 GEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCC--LS  272 (357)
T ss_dssp             ---CHHHHHHHHHHHHHHC----CCCCEEEEEEESCGGGBCHHHHTTCCEEEECCCCCHHHHHHHHHHHHHTSCBC--CC
T ss_pred             CcchHHHHHHHHHHHHHhcccccCCCCEEEEEecCChhhCCHHHHhhCceEEEeCCcCHHHHHHHHHHHHhhcCCC--cc
Confidence                   11222222211    1134556666775542111 1  1233577899999999888887665222111  12


Q ss_pred             HHHHHHHHHHhcC-CchHHHHHhhh
Q 005191          365 LKHSETAAHYAKG-NPLALQVLGSS  388 (709)
Q Consensus       365 ~~~~~~Iv~~~gG-lPLAL~~la~~  388 (709)
                      .+....|++.+.| .|-.|..+...
T Consensus       273 ~~~l~~la~~t~G~s~~dl~~l~~~  297 (357)
T 3d8b_A          273 EEEIEQIVQQSDAFSGADMTQLCRE  297 (357)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3457788888888 55566665443

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=98.42  E-value=5.1e-07  Score=99.48  Aligned_cols=184  Identities=12%  Similarity=0.087  Sum_probs=106.0

Q ss_pred             CCCcc-ccchhh--hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccce--EEEeeecccccccCCHHHH
Q 005191          181 SDGLI-GLESHV--EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGK--YFMANVREESEKCGGLVHL  255 (709)
Q Consensus       181 ~~~~v-GR~~el--~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~--~~v~~~~~~~~~~~~l~~l  255 (709)
                      .+.|+ |.....  ..+........ ....+.|+|++|+||||||+.+++.+...++..  +++.           ...+
T Consensus       104 fd~fv~g~~n~~a~~~~~~~a~~~~-~~~~lll~Gp~G~GKTtLa~aia~~l~~~~~~~~v~~v~-----------~~~~  171 (440)
T 2z4s_A          104 FENFVVGPGNSFAYHAALEVAKHPG-RYNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT-----------SEKF  171 (440)
T ss_dssp             GGGCCCCTTTHHHHHHHHHHHHSTT-SSCCEEEECSSSSSHHHHHHHHHHHHHHHCCSSCEEEEE-----------HHHH
T ss_pred             hhhcCCCCchHHHHHHHHHHHhCCC-CCCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee-----------HHHH
Confidence            34566 655443  23333333222 267899999999999999999999876665332  2332           1123


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----hhhhhhcCCCC-CCCCeEEEEEcCchh-----
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----QLEYFDGGLDR-FGPGSRIIVTTRDKT-----  325 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----~~~~l~~~l~~-~~~gsrIIvTTR~~~-----  325 (709)
                      ...+...+...        ....+.+.+..++.+|+|||++...    .-+.+...+.. ...|..||+||.+..     
T Consensus       172 ~~~~~~~~~~~--------~~~~~~~~~~~~~~vL~IDEi~~l~~~~~~q~~l~~~l~~l~~~~~~iIitt~~~~~~l~~  243 (440)
T 2z4s_A          172 LNDLVDSMKEG--------KLNEFREKYRKKVDILLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSE  243 (440)
T ss_dssp             HHHHHHHHHTT--------CHHHHHHHHTTTCSEEEEECGGGGSSCHHHHHHHHHHHHHHHTTTCEEEEEESSCGGGCSS
T ss_pred             HHHHHHHHHcc--------cHHHHHHHhcCCCCEEEEeCcccccCChHHHHHHHHHHHHHHHCCCeEEEEECCCHHHHHH
Confidence            33444443221        1223444444467899999995422    22233322211 135678888887631     


Q ss_pred             ----hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHh
Q 005191          326 ----ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLG  386 (709)
Q Consensus       326 ----v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la  386 (709)
                          +...+....++.+++++.++-.+++.+.+......  ...+....|++.++|++--+.-+.
T Consensus       244 l~~~L~sR~~~g~~i~l~~p~~e~r~~iL~~~~~~~~~~--i~~e~l~~la~~~~gn~R~l~~~L  306 (440)
T 2z4s_A          244 FQDRLVSRFQMGLVAKLEPPDEETRKSIARKMLEIEHGE--LPEEVLNFVAENVDDNLRRLRGAI  306 (440)
T ss_dssp             CCHHHHHHHHSSBCCBCCCCCHHHHHHHHHHHHHHHTCC--CCTTHHHHHHHHCCSCHHHHHHHH
T ss_pred             HHHHHHhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCCC--CCHHHHHHHHHhcCCCHHHHHHHH
Confidence                11222223578899999999999998776322111  112456778888999887655443

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=98.40  E-value=3.7e-06  Score=90.06  Aligned_cols=202  Identities=15%  Similarity=0.083  Sum_probs=106.6

Q ss_pred             CCCccccchhhhHHH---hhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          181 SDGLIGLESHVEQVR---SLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       181 ~~~~vGR~~el~~L~---~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      .+.++|++...+.+.   +.+..+....+.+.|+|++|+|||+||+.+++.+....+. +.+. ................
T Consensus        43 ~~~ivG~~~~~~~l~~l~~~~~~~~~~~~~vLl~GppGtGKT~la~~la~~l~~~~~~-~~~~-~~~~~~~~~~~~~~~~  120 (368)
T 3uk6_A           43 SQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF-TAIA-GSEIFSLEMSKTEALT  120 (368)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEEESTTSSHHHHHHHHHHHHCSSCCE-EEEE-GGGGSCSSSCHHHHHH
T ss_pred             hhhccChHHHHHHHHHHHHHHHcCCCCCCEEEEECCCCCCHHHHHHHHHHHhcccCCc-cccc-chhhhhcccchhHHHH
Confidence            567999999877644   4444443334789999999999999999999987543221 1111 1111111122233333


Q ss_pred             HHHHHhcC---------------------CCC------CCCCCChhHHHHHHH---------ccC----ceEEEecCCCC
Q 005191          258 QVLSKLLG---------------------ENF------DIGTPKIPQYIRDRL---------QRM----KVFIVLDDVNK  297 (709)
Q Consensus       258 ~ll~~l~~---------------------~~~------~~~~~~~~~~l~~~L---------~~k----r~LLVLDdv~~  297 (709)
                      +.+....+                     ...      .....+....+++.+         .++    +.+|+||+++.
T Consensus       121 ~~~~~~~~~~~~~~~~~~~~~~~ld~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g~~~~~~~vl~IDEi~~  200 (368)
T 3uk6_A          121 QAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHM  200 (368)
T ss_dssp             HHHHHSBEECC------CEEHHHHHHHTC----CCSCC-------CHHHHHHHHHHHHHHHHHTC---CBCEEEEESGGG
T ss_pred             HHHHHHHHHHhhhhccccccHhhhhhhhcccccchhhccCcccccHHHHHHHHHHHHHHhhhhccccccCceEEEhhccc
Confidence            33332100                     000      000000122222211         122    46999999965


Q ss_pred             h--hhhhhhhcCCCCCCCCeEEEEEcCc------------h-hhhh-hcCcceEEEecCCChHHHHHHhhhcccccCCCC
Q 005191          298 Y--GQLEYFDGGLDRFGPGSRIIVTTRD------------K-TILE-RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCP  361 (709)
Q Consensus       298 ~--~~~~~l~~~l~~~~~gsrIIvTTR~------------~-~v~~-~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~  361 (709)
                      .  +....+...+...... .++++|..            . .+.. .......+.+++++.++..+++...+.....  
T Consensus       201 l~~~~~~~L~~~le~~~~~-~~ii~t~~~~~~i~~t~~~~~~~l~~~l~sR~~~i~~~~~~~~e~~~il~~~~~~~~~--  277 (368)
T 3uk6_A          201 LDIESFSFLNRALESDMAP-VLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDV--  277 (368)
T ss_dssp             SBHHHHHHHHHHTTCTTCC-EEEEEESCSEEECBTSSCEEETTCCHHHHTTEEEEEECCCCHHHHHHHHHHHHHHTTC--
T ss_pred             cChHHHHHHHHHhhCcCCC-eeeeecccceeeeeccCCCCcccCCHHHHhhccEEEecCCCHHHHHHHHHHHHHHcCC--
Confidence            3  3444444444332333 34444421            1 1111 1112245799999999999999877633221  


Q ss_pred             hhhHHHHHHHHHHhc-CCchHHHHHhh
Q 005191          362 EDLLKHSETAAHYAK-GNPLALQVLGS  387 (709)
Q Consensus       362 ~~~~~~~~~Iv~~~g-GlPLAL~~la~  387 (709)
                      ....+..+.+++.+. |.|-.+..+..
T Consensus       278 ~~~~~~l~~l~~~~~~G~~r~~~~ll~  304 (368)
T 3uk6_A          278 EMSEDAYTVLTRIGLETSLRYAIQLIT  304 (368)
T ss_dssp             CBCHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            123456788899998 88876655443

>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=98.37  E-value=8.3e-06  Score=82.74  Aligned_cols=182  Identities=17%  Similarity=0.155  Sum_probs=98.3

Q ss_pred             CCCccccchhhhHHHhhhhc---c-------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          181 SDGLIGLESHVEQVRSLLAI---G-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~---~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ...++|.+...+.+.+++..   .       ....+.+.|+|++|+|||++|+.+++.....|   +.+. .........
T Consensus         5 ~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~~~-~~~~~~~~~   80 (262)
T 2qz4_A            5 FKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPF---LAMA-GAEFVEVIG   80 (262)
T ss_dssp             TTSSCSCHHHHHHHHHHHHHHHCCC------CCCCCEEEEESCTTSSHHHHHHHHHHHHTCCE---EEEE-TTTTSSSST
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCE---EEec-hHHHHhhcc
Confidence            35688888887777665431   1       12346688999999999999999998764322   1222 111111000


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-----------------hhhhhhhcCCCC--C
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-----------------GQLEYFDGGLDR--F  311 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-----------------~~~~~l~~~l~~--~  311 (709)
                      +..   ..               .....+.......+.+|+||+++..                 ..+..++..+..  .
T Consensus        81 ~~~---~~---------------~~~~~~~~a~~~~~~vl~iDeid~l~~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~  142 (262)
T 2qz4_A           81 GLG---AA---------------RVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGT  142 (262)
T ss_dssp             THH---HH---------------HHHHHHHHHHHTCSEEEEEECC-------------------CHHHHHHHHHHHTCCT
T ss_pred             Chh---HH---------------HHHHHHHHHHhcCCeEEEEeCcchhhccccccccCccchhHHHHHHHHHHHhhCcCC
Confidence            000   00               0112222233446789999999753                 112233322211  1


Q ss_pred             CCCeEEEEEcCchhhhh-hc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch-HHHHH
Q 005191          312 GPGSRIIVTTRDKTILE-RY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL-ALQVL  385 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~-~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL-AL~~l  385 (709)
                      ..+..||.||....... ..    .....+.++..+.++-.+++...+..... ..........+++.+.|.+- .|..+
T Consensus       143 ~~~~~vi~~tn~~~~ld~~l~~~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~-~~~~~~~~~~l~~~~~g~~~~~l~~l  221 (262)
T 2qz4_A          143 TDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKL-TQSSTFYSQRLAELTPGFSGADIANI  221 (262)
T ss_dssp             TCCEEEEEEESCGGGGGSGGGSTTSCCEEEECCSCCHHHHHHHHHHHHHHTTC-CBTHHHHHHHHHHTCTTCCHHHHHHH
T ss_pred             CCCEEEEecCCChhhcCHHHhcCCcCCeEEEeCCcCHHHHHHHHHHHHHhCCC-CcchhhHHHHHHHHCCCCCHHHHHHH
Confidence            23556777776543221 11    23367889999999999998877633221 11222234677888887654 44443

>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=98.33  E-value=3e-06  Score=90.29  Aligned_cols=199  Identities=11%  Similarity=0.075  Sum_probs=107.4

Q ss_pred             CCCCCccccchhhhHHHhhh-hccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEee----------------
Q 005191          179 SDSDGLIGLESHVEQVRSLL-AIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMAN----------------  241 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L-~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~----------------  241 (709)
                      .....++|.+..++.+.+++ ..+. ... +.|+|++|+||||+|+.++..+.......+.+..                
T Consensus        11 ~~~~~~vg~~~~~~~l~~~~~~~~~-~~~-~ll~Gp~G~GKTtl~~~la~~l~~~~~g~i~~~~~~~~~~~~~~~~~~~~   88 (354)
T 1sxj_E           11 KSLNALSHNEELTNFLKSLSDQPRD-LPH-LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   88 (354)
T ss_dssp             CSGGGCCSCHHHHHHHHTTTTCTTC-CCC-EEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CCHHHhcCCHHHHHHHHHHHhhCCC-CCe-EEEECCCCCCHHHHHHHHHHHHcCCCCCeEEecceeecccccccceeeee
Confidence            34467999999999999988 5332 234 8999999999999999999864322111111100                


Q ss_pred             -------ecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCC
Q 005191          242 -------VREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFG  312 (709)
Q Consensus       242 -------~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~  312 (709)
                             ... +..........++++..+.... ....  .. .+. .+..++-++|||++...  ...+.+...+....
T Consensus        89 ~~~~~~~~~~-~~~~~~~~~~~~~~i~~~~~~~-~~~~--~~-~ls-~l~~~~~vlilDE~~~L~~~~~~~L~~~le~~~  162 (354)
T 1sxj_E           89 SSPYHLEITP-SDMGNNDRIVIQELLKEVAQME-QVDF--QD-SKD-GLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  162 (354)
T ss_dssp             ECSSEEEECC-C----CCHHHHHHHHHHHTTTT-C----------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cccceEEecH-hhcCCcchHHHHHHHHHHHHhc-cccc--cc-ccc-ccCCCCeEEEEeCccccCHHHHHHHHHHHHhhc
Confidence                   000 0000000001222222221100 0000  00 000 02346779999999753  23344443333334


Q ss_pred             CCeEEEEEcCchh-hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhh-HHHHHHHHHHhcCCchHHHHHhh
Q 005191          313 PGSRIIVTTRDKT-ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDL-LKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       313 ~gsrIIvTTR~~~-v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~-~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      .+..+|++|.+.. +.... +....+++++++.++..+.+...+.....  ... .+.+..|++.++|.+-.+..+..
T Consensus       163 ~~~~~Il~t~~~~~l~~~l~sR~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~~l~~i~~~~~G~~r~a~~~l~  238 (354)
T 1sxj_E          163 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI--QLETKDILKRIAQASNGNLRVSLLMLE  238 (354)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC--EECCSHHHHHHHHHHTTCHHHHHHHHT
T ss_pred             CCCEEEEEeCCHHHHHHHHHhhceEEecCCcCHHHHHHHHHHHHHHcCC--CCCcHHHHHHHHHHcCCCHHHHHHHHH
Confidence            5678888776542 22211 22368899999999999999877632221  111 35578899999999876655443

>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=98.32  E-value=5.3e-06  Score=87.41  Aligned_cols=184  Identities=15%  Similarity=0.090  Sum_probs=103.5

Q ss_pred             CCCCCCccccchhhhHHHhhhh----------ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLA----------IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE  247 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~----------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~  247 (709)
                      +..-..++|.+..++.|.+.+.          ......+-+.|+|++|+|||+||+.+++.....|    +..+......
T Consensus        14 ~~~~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vLl~GppGtGKT~la~aia~~~~~~~----~~v~~~~l~~   89 (322)
T 3eie_A           14 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF----FSVSSSDLVS   89 (322)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCGGGCCTTCCCCCEEEEECSSSSCHHHHHHHHHHHHTCEE----EEEEHHHHHT
T ss_pred             CCCHHHhcChHHHHHHHHHHHHHHHhCHHHHhcCCCCCCeEEEECCCCCcHHHHHHHHHHHHCCCE----EEEchHHHhh
Confidence            3445678999999999888772          1112246789999999999999999998754332    1111111000


Q ss_pred             cc-CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh-------------hhhhhhcC---CCC
Q 005191          248 KC-GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG-------------QLEYFDGG---LDR  310 (709)
Q Consensus       248 ~~-~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~~---l~~  310 (709)
                      .. ......                   ....+......++.+|+||+++...             ....++..   +..
T Consensus        90 ~~~g~~~~~-------------------~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  150 (322)
T 3eie_A           90 KWMGESEKL-------------------VKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN  150 (322)
T ss_dssp             TTGGGHHHH-------------------HHHHHHHHHHTSSEEEEEECGGGGSCC------CCTHHHHHHHHHHHGGGGT
T ss_pred             cccchHHHH-------------------HHHHHHHHHhcCCeEEEechhhhhhccCCCCcchHHHHHHHHHHHHhccccc
Confidence            00 000000                   1112222224567899999996421             12222222   212


Q ss_pred             CCCCeEEEEEcCchhhhhh---cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHHh
Q 005191          311 FGPGSRIIVTTRDKTILER---YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVLG  386 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~~~---~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~la  386 (709)
                      ...+..||.||........   -.....+.++..+.++-.+++..++......  ........|++.+.|. +-.|..+.
T Consensus       151 ~~~~v~vi~atn~~~~ld~al~~Rf~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~l~~la~~t~g~sg~di~~l~  228 (322)
T 3eie_A          151 DSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPCV--LTKEDYRTLGAMTEGYSGSDIAVVV  228 (322)
T ss_dssp             SCCCEEEEEEESCGGGSCHHHHHHCCEEEECCCCCHHHHHHHHHHHHTTCCCC--CCHHHHHHHHHTTTTCCHHHHHHHH
T ss_pred             cCCceEEEEecCChhhCCHHHHcccCeEEEeCCCCHHHHHHHHHHHhccCCCC--CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            2456667767765432211   0233577889999999999998876332211  1233567788888773 44444443

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=98.32  E-value=3.4e-06  Score=92.85  Aligned_cols=181  Identities=15%  Similarity=0.241  Sum_probs=105.8

Q ss_pred             CCCCCCccccchhh---hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHV---EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el---~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      |.....++|.+..+   ..|...+..+  ..+.+.|+|++|+||||||+.+++.....|.   -+.   ...   .+...
T Consensus        22 P~~l~~ivGq~~~~~~~~~L~~~i~~~--~~~~vLL~GppGtGKTtlAr~ia~~~~~~f~---~l~---a~~---~~~~~   90 (447)
T 3pvs_A           22 PENLAQYIGQQHLLAAGKPLPRAIEAG--HLHSMILWGPPGTGKTTLAEVIARYANADVE---RIS---AVT---SGVKE   90 (447)
T ss_dssp             CCSTTTCCSCHHHHSTTSHHHHHHHHT--CCCEEEEECSTTSSHHHHHHHHHHHTTCEEE---EEE---TTT---CCHHH
T ss_pred             CCCHHHhCCcHHHHhchHHHHHHHHcC--CCcEEEEECCCCCcHHHHHHHHHHHhCCCeE---EEE---ecc---CCHHH
Confidence            34457799999888   6777777654  3478999999999999999999987644331   111   110   22222


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEE-EEcCchh--hhh-
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRII-VTTRDKT--ILE-  328 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrII-vTTR~~~--v~~-  328 (709)
                      + +.++...               ......+++.+|+||+++..  .+.+.++..+..  ....+| .||.+..  +.. 
T Consensus        91 i-r~~~~~a---------------~~~~~~~~~~iLfIDEI~~l~~~~q~~LL~~le~--~~v~lI~att~n~~~~l~~a  152 (447)
T 3pvs_A           91 I-REAIERA---------------RQNRNAGRRTILFVDEVHRFNKSQQDAFLPHIED--GTITFIGATTENPSFELNSA  152 (447)
T ss_dssp             H-HHHHHHH---------------HHHHHTTCCEEEEEETTTCC------CCHHHHHT--TSCEEEEEESSCGGGSSCHH
T ss_pred             H-HHHHHHH---------------HHhhhcCCCcEEEEeChhhhCHHHHHHHHHHHhc--CceEEEecCCCCcccccCHH
Confidence            2 1111111               01111356889999999753  233444444332  223344 3555542  111 


Q ss_pred             hcCcceEEEecCCChHHHHHHhhhcccccC-----CCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          329 RYGTHRIYEVEGLNCNEALRLFCSCAFKEN-----HCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       329 ~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~-----~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      ......++.+++++.++..+++.+.+-...     .......+..+.+++.++|++-.+..+..
T Consensus       153 L~sR~~v~~l~~l~~edi~~il~~~l~~~~~~~~~~~~~i~~~al~~L~~~~~Gd~R~lln~Le  216 (447)
T 3pvs_A          153 LLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLE  216 (447)
T ss_dssp             HHTTEEEEECCCCCHHHHHHHHHHHHHCTTTSSTTSSEECCHHHHHHHHHHHCSCHHHHHHHHH
T ss_pred             HhCceeEEeeCCcCHHHHHHHHHHHHHHHhhhhccccCcCCHHHHHHHHHHCCCCHHHHHHHHH
Confidence            112345889999999999999887663211     11123346678888999999876655443

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=98.28  E-value=5.4e-06  Score=86.46  Aligned_cols=150  Identities=13%  Similarity=0.103  Sum_probs=87.1

Q ss_pred             CccccchhhhHHHhhhhcc-------------CCCceEEEEEccCCCchhHHHHHHHHHhhhccc--ceEEEe-eecccc
Q 005191          183 GLIGLESHVEQVRSLLAIG-------------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE--GKYFMA-NVREES  246 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~-------------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~--~~~~v~-~~~~~~  246 (709)
                      .++|.+...+.|.+.+...             ......+.|+|++|+|||+||+.+++.+.....  ...++. +.....
T Consensus        32 ~i~G~~~~~~~l~~~~~~~~~~~~~~~~g~~~~~~~~~vll~G~~GtGKT~la~~la~~l~~~~~~~~~~~~~~~~~~l~  111 (309)
T 3syl_A           32 ELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLV  111 (309)
T ss_dssp             HSSSCHHHHHHHHHHHHHHHHHHHHHHHTCCSSCCCCEEEEEECTTSSHHHHHHHHHHHHHHTTSSSSCCEEEECGGGTC
T ss_pred             HccChHHHHHHHHHHHHHHHhHHHHHHcCCCCCCCCceEEEECCCCCCHHHHHHHHHHHHHhcCCcCCCcEEEEcHHHhh
Confidence            4788888888777655421             234567899999999999999999987644321  111222 111110


Q ss_pred             cccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc-cCceEEEecCCC-----------ChhhhhhhhcCCCCCCCC
Q 005191          247 EKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ-RMKVFIVLDDVN-----------KYGQLEYFDGGLDRFGPG  314 (709)
Q Consensus       247 ~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~-~kr~LLVLDdv~-----------~~~~~~~l~~~l~~~~~g  314 (709)
                      ..                  .    .......+...+. .++.+|+||+++           .......+...+.....+
T Consensus       112 ~~------------------~----~g~~~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~Ll~~l~~~~~~  169 (309)
T 3syl_A          112 GQ------------------Y----IGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDD  169 (309)
T ss_dssp             CS------------------S----TTCHHHHHHHHHHHHTTSEEEEETGGGSCCCC---CCTHHHHHHHHHHHHHCTTT
T ss_pred             hh------------------c----ccccHHHHHHHHHhcCCCEEEEEChhhhccCCCcccccHHHHHHHHHHHhcCCCC
Confidence            00                  0    0001111222221 145699999997           333445555444444556


Q ss_pred             eEEEEEcCchhhh------hhc--CcceEEEecCCChHHHHHHhhhcc
Q 005191          315 SRIIVTTRDKTIL------ERY--GTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       315 srIIvTTR~~~v~------~~~--~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ..||.||......      ...  .....+.+++++.++-.+++...+
T Consensus       170 ~~~i~~~~~~~~~~~~~~~~~l~~R~~~~i~~~~~~~~~~~~il~~~l  217 (309)
T 3syl_A          170 LVVILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHML  217 (309)
T ss_dssp             CEEEEEECHHHHHHHHHHSTTHHHHEEEEEEECCCCHHHHHHHHHHHH
T ss_pred             EEEEEeCChHHHHHHHhhCHHHHHhCCeEEEcCCcCHHHHHHHHHHHH
Confidence            7788887643211      000  123688999999999999987766

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=98.26  E-value=5.4e-06  Score=87.34  Aligned_cols=179  Identities=15%  Similarity=0.112  Sum_probs=97.9

Q ss_pred             CCCCcc-ccchh--hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHH
Q 005191          180 DSDGLI-GLESH--VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       180 ~~~~~v-GR~~e--l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      ..+.|+ |....  ...+..+..........+.|+|++|+||||||+.+++.....-...+++. .          ..+.
T Consensus         9 ~f~~fv~g~~~~~a~~~~~~~~~~~~~~~~~lll~G~~GtGKT~la~~i~~~~~~~~~~~~~i~-~----------~~~~   77 (324)
T 1l8q_A            9 TLENFIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-A----------DDFA   77 (324)
T ss_dssp             CSSSCCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-H----------HHHH
T ss_pred             CcccCCCCCcHHHHHHHHHHHHhCcCCCCCeEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEE-H----------HHHH
Confidence            345666 54332  33344444433223567899999999999999999998754422233333 1          1122


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----hhhhhhcCCCC-CCCCeEEEEEcCchh------
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----QLEYFDGGLDR-FGPGSRIIVTTRDKT------  325 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----~~~~l~~~l~~-~~~gsrIIvTTR~~~------  325 (709)
                      ..+...+...        ....+.+.+. ++.+|+|||++...    ..+.+...+.. ...+..||+||....      
T Consensus        78 ~~~~~~~~~~--------~~~~~~~~~~-~~~vL~iDEi~~l~~~~~~~~~l~~~l~~~~~~~~~iii~~~~~~~~l~~l  148 (324)
T 1l8q_A           78 QAMVEHLKKG--------TINEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGV  148 (324)
T ss_dssp             HHHHHHHHHT--------CHHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTS
T ss_pred             HHHHHHHHcC--------cHHHHHHHhc-CCCEEEEcCcccccCChHHHHHHHHHHHHHHHCCCeEEEEecCChHHHHHh
Confidence            2333332110        1222233332 46799999996432    12222222110 124567888775431      


Q ss_pred             ---hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          326 ---ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       326 ---v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                         +...+....++++++ +.++..+++...+.....  ....+..+.|++.+ |++-.+
T Consensus       149 ~~~L~sR~~~~~~i~l~~-~~~e~~~il~~~~~~~~~--~l~~~~l~~l~~~~-g~~r~l  204 (324)
T 1l8q_A          149 SDRLVSRFEGGILVEIEL-DNKTRFKIIKEKLKEFNL--ELRKEVIDYLLENT-KNVREI  204 (324)
T ss_dssp             CHHHHHHHHTSEEEECCC-CHHHHHHHHHHHHHHTTC--CCCHHHHHHHHHHC-SSHHHH
T ss_pred             hhHhhhcccCceEEEeCC-CHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHhC-CCHHHH
Confidence               112222236789999 999999999887632221  12235577788888 876543

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=98.24  E-value=1.2e-05  Score=83.49  Aligned_cols=184  Identities=16%  Similarity=0.105  Sum_probs=101.2

Q ss_pred             CCCCCCccccchhhhHHHhhhhcc----------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIG----------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE  247 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~  247 (709)
                      +..-..++|.+..++.+.+.+...          ....+.+.|+|++|+|||+||+.++......|   +.+. ......
T Consensus        17 ~~~~~~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~vll~Gp~GtGKT~la~~la~~~~~~~---~~i~-~~~l~~   92 (297)
T 3b9p_A           17 KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATF---LNIS-AASLTS   92 (297)
T ss_dssp             CCCGGGSCCCHHHHHHHHHHTHHHHHCGGGSCGGGCCCSEEEEESSSSSCHHHHHHHHHHHTTCEE---EEEE-STTTSS
T ss_pred             CCCHHHhCChHHHHHHHHHHHHhhhhCHHHHhcCCCCCCeEEEECcCCCCHHHHHHHHHHHhCCCe---EEee-HHHHhh
Confidence            344567999999999998876421          12356889999999999999999998763322   1111 111110


Q ss_pred             cc-CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh-------------hhhhhhc---CCCC
Q 005191          248 KC-GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG-------------QLEYFDG---GLDR  310 (709)
Q Consensus       248 ~~-~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~---~l~~  310 (709)
                      .. ......                   ....+......++.+|+||+++...             ....++.   ....
T Consensus        93 ~~~~~~~~~-------------------~~~~~~~~~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  153 (297)
T 3b9p_A           93 KYVGDGEKL-------------------VRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPG  153 (297)
T ss_dssp             SSCSCHHHH-------------------HHHHHHHHHHTCSEEEEEETGGGTSBCC-----CCSHHHHHHHHHHHHHCC-
T ss_pred             cccchHHHH-------------------HHHHHHHHHHcCCcEEEeccHHHhccccccCcchHHHHHHHHHHHHHhcccc
Confidence            00 000011                   1111222224567899999995421             1111221   1111


Q ss_pred             --CCCCeEEEEEcCchhhhh-hc--CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch-HHHH
Q 005191          311 --FGPGSRIIVTTRDKTILE-RY--GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL-ALQV  384 (709)
Q Consensus       311 --~~~gsrIIvTTR~~~v~~-~~--~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL-AL~~  384 (709)
                        .+.+..||.||....... ..  .....+.++..+.++..+++...+......  ...+....+++.+.|.+- .|..
T Consensus       154 ~~~~~~v~vi~~tn~~~~l~~~l~~R~~~~i~~~~p~~~~r~~il~~~~~~~~~~--~~~~~~~~la~~~~g~~~~~l~~  231 (297)
T 3b9p_A          154 NPDGDRIVVLAATNRPQELDEAALRRFTKRVYVSLPDEQTRELLLNRLLQKQGSP--LDTEALRRLAKITDGYSGSDLTA  231 (297)
T ss_dssp             -----CEEEEEEESCGGGBCHHHHHHCCEEEECCCCCHHHHHHHHHHHHGGGSCC--SCHHHHHHHHHHTTTCCHHHHHH
T ss_pred             cCCCCcEEEEeecCChhhCCHHHHhhCCeEEEeCCcCHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHHcCCCCHHHHHH
Confidence              123456677776542111 10  123567788888888888887665322211  123456788889999875 5544


Q ss_pred             Hh
Q 005191          385 LG  386 (709)
Q Consensus       385 la  386 (709)
                      +.
T Consensus       232 l~  233 (297)
T 3b9p_A          232 LA  233 (297)
T ss_dssp             HH
T ss_pred             HH
Confidence            44

>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=98.22  E-value=3.2e-05  Score=85.21  Aligned_cols=186  Identities=14%  Similarity=0.129  Sum_probs=104.7

Q ss_pred             CCCCCCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE  247 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~  247 (709)
                      +..-..++|.+...+.|.+.+..          .....+.+.|+|++|+|||+||+.+++....    ..|+. +   ..
T Consensus       130 ~~~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~vLL~GppGtGKT~lA~aia~~~~~----~~~~~-v---~~  201 (444)
T 2zan_A          130 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN----STFFS-I---SS  201 (444)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHTHHHHCTTTTSGGGCCCSEEEEECSTTSSHHHHHHHHHHHCCS----SEEEE-E---CC
T ss_pred             CCCHHHhcCHHHHHHHHHHHHHHHhhCHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHcCC----CCEEE-E---eH
Confidence            34456799999988888876621          1123478899999999999999999997621    11222 1   00


Q ss_pred             ccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-------------hhhhhhhcCCCC---C
Q 005191          248 KCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-------------GQLEYFDGGLDR---F  311 (709)
Q Consensus       248 ~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-------------~~~~~l~~~l~~---~  311 (709)
                        ..   +.    ....+    .........+...-..++.+|+||+++..             .....++..+..   .
T Consensus       202 --~~---l~----~~~~g----~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~lL~~l~~~~~~  268 (444)
T 2zan_A          202 --SD---LV----SKWLG----ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD  268 (444)
T ss_dssp             --C--------------------CCCTHHHHHHHHHHSCSEEEEESCTTTTCCCSSCCCCGGGHHHHHHHHTTTTCSSCC
T ss_pred             --HH---HH----hhhcc----hHHHHHHHHHHHHHHcCCeEEEEechHhhccCCCCccccHHHHHHHHHHHHHhCcccC
Confidence              00   10    11100    01111223333333457899999999753             122334444332   2


Q ss_pred             CCCeEEEEEcCchhhhhh---cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHHh
Q 005191          312 GPGSRIIVTTRDKTILER---YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVLG  386 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~~---~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~la  386 (709)
                      ..+..||.||..+.....   -.....+.++..+.++-.+++..++.....  .........|++.+.|. +-.|..+.
T Consensus       269 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~--~l~~~~l~~la~~t~G~sgadl~~l~  345 (444)
T 2zan_A          269 NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQN--SLTEADFQELGRKTDGYSGADISIIV  345 (444)
T ss_dssp             CSSCEEEEEESCGGGSCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCE--ECCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCEEEEecCCCccccCHHHHhhcceEEEeCCcCHHHHHHHHHHHHhcCCC--CCCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            345667777765432111   123457788888888888888777632211  11234567888888884 44444443

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=98.21  E-value=3.2e-05  Score=81.35  Aligned_cols=183  Identities=12%  Similarity=0.108  Sum_probs=100.5

Q ss_pred             CCCCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          180 DSDGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      .-..++|.+...+.|.+.+..          .....+.+.|+|++|+|||+||+.+++....   ..++.......... 
T Consensus        10 ~~~di~G~~~~k~~l~~~v~~p~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~---~~~~~i~~~~l~~~-   85 (322)
T 1xwi_A           10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANN---STFFSISSSDLVSK-   85 (322)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCGGGSCTTCCCCSEEEEESSSSSCHHHHHHHHHHHTTS---CEEEEEECCSSCCS-
T ss_pred             CHHHhcCHHHHHHHHHHHHHHHHhCHHHHhCCCCCCceEEEECCCCccHHHHHHHHHHHcCC---CcEEEEEhHHHHhh-
Confidence            345688888887777765521          1123478899999999999999999997621   11111111111000 


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCC-hhHHH-HHHHccCceEEEecCCCChh-------------hhhhhhcC---CCCC
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPK-IPQYI-RDRLQRMKVFIVLDDVNKYG-------------QLEYFDGG---LDRF  311 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l-~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~~---l~~~  311 (709)
                                       .  ....+ ....+ ...-..++.+|+||+++...             ....++..   +...
T Consensus        86 -----------------~--~g~~~~~~~~lf~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~ll~~ld~~~~~  146 (322)
T 1xwi_A           86 -----------------W--LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVD  146 (322)
T ss_dssp             -----------------S--CCSCHHHHHHHHHHHHHTSSEEEEEETTTGGGCCSSSCCTTHHHHHHHHHHHHHHCSSSC
T ss_pred             -----------------h--hhHHHHHHHHHHHHHHhcCCcEEEeecHHHhccccccccchHHHHHHHHHHHHHhccccc
Confidence                             0  00011 11222 22224578899999997531             11222221   1112


Q ss_pred             CCCeEEEEEcCchhhhh-h--cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHHhh
Q 005191          312 GPGSRIIVTTRDKTILE-R--YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVLGS  387 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~-~--~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~la~  387 (709)
                      ..+..||.||..+.... .  -.....+.++..+.++-.+++..+.......  ........|++.+.|. +-.|..+..
T Consensus       147 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--l~~~~l~~la~~t~G~sgadl~~l~~  224 (322)
T 1xwi_A          147 NDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEPHARAAMFKLHLGTTQNS--LTEADFRELGRKTDGYSGADISIIVR  224 (322)
T ss_dssp             CTTEEEEEEESCTTTSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTCCBC--CCHHHHHHHHHTCTTCCHHHHHHHHH
T ss_pred             CCCEEEEEecCCcccCCHHHHhhcCeEEEeCCcCHHHHHHHHHHHHhcCCCC--CCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34566666775542211 1  1234678899999999899887766322111  1234567888888886 434554443

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=98.21  E-value=5.2e-06  Score=79.09  Aligned_cols=50  Identities=22%  Similarity=0.272  Sum_probs=41.9

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....++||+.+++.+.+.+...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus        20 ~~~~~~g~~~~~~~l~~~l~~~--~~~~vll~G~~G~GKT~la~~~~~~~~~   69 (187)
T 2p65_A           20 KLDPVIGRDTEIRRAIQILSRR--TKNNPILLGDPGVGKTAIVEGLAIKIVQ   69 (187)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEESCGGGCHHHHHHHHHHHHHT
T ss_pred             ccchhhcchHHHHHHHHHHhCC--CCCceEEECCCCCCHHHHHHHHHHHHHh
Confidence            3467999999999999988753  3456789999999999999999987644

>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=98.18  E-value=1.8e-05  Score=84.50  Aligned_cols=183  Identities=15%  Similarity=0.122  Sum_probs=101.5

Q ss_pred             CCCCCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      ..-..++|.+..++.|.+.+..          .....+-+.|+|++|+|||+||+.+++.....|    +.....     
T Consensus        48 ~~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~iLL~GppGtGKT~la~ala~~~~~~~----~~v~~~-----  118 (355)
T 2qp9_X           48 VKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTF----FSVSSS-----  118 (355)
T ss_dssp             CCGGGSCCGGGHHHHHHHHTHHHHHCGGGGCSSCCCCCCEEEECSTTSCHHHHHHHHHHHHTCEE----EEEEHH-----
T ss_pred             CCHHHhCCHHHHHHHHHHHHHHHHhCHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCE----EEeeHH-----
Confidence            3446689999998888877631          112245688999999999999999999864322    111111     


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCCCCChhHH-HHHHHccCceEEEecCCCChh-------------hhhhhhcCCC---CC
Q 005191          249 CGGLVHLRNQVLSKLLGENFDIGTPKIPQY-IRDRLQRMKVFIVLDDVNKYG-------------QLEYFDGGLD---RF  311 (709)
Q Consensus       249 ~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~-l~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~~l~---~~  311 (709)
                           .+    ....    .. ........ +......++.+|+||+++...             ....++..+.   ..
T Consensus       119 -----~l----~~~~----~g-~~~~~~~~~f~~a~~~~~~vl~iDEid~l~~~r~~~~~~~~~~~~~~ll~~l~~~~~~  184 (355)
T 2qp9_X          119 -----DL----VSKW----MG-ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGND  184 (355)
T ss_dssp             -----HH----HSCC--------CHHHHHHHHHHHHHTSSEEEEEECGGGGTC------CTHHHHHHHHHHHHHHHCC--
T ss_pred             -----HH----hhhh----cc-hHHHHHHHHHHHHHHcCCeEEEEechHhhcccCCCCcchHHHHHHHHHHHHhhccccc
Confidence                 01    1000    00 00011222 222224578999999996432             1222322221   11


Q ss_pred             CCCeEEEEEcCchhhhh-h--cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHHh
Q 005191          312 GPGSRIIVTTRDKTILE-R--YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVLG  386 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~-~--~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~la  386 (709)
                      ..+..||.||....... .  -.....+.++..+.++-.+++..++......  ........|++.+.|. |-.|..+.
T Consensus       185 ~~~v~vI~atn~~~~ld~al~rRf~~~i~i~~P~~~~r~~il~~~l~~~~~~--~~~~~l~~la~~t~G~sg~dl~~l~  261 (355)
T 2qp9_X          185 SQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSV--LTKEDYRTLGAMTEGYSGSDIAVVV  261 (355)
T ss_dssp             -CCEEEEEEESCGGGSCHHHHHTCCEEEECCCCCHHHHHHHHHHHHTTSCBC--CCHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             CCCeEEEeecCCcccCCHHHHcccCEEEEeCCcCHHHHHHHHHHHHhhCCCC--CCHHHHHHHHHHcCCCCHHHHHHHH
Confidence            34566666776542111 1  1234677899999999999988776332211  1134567888888884 44455444

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=98.17  E-value=2.4e-05  Score=84.64  Aligned_cols=185  Identities=16%  Similarity=0.095  Sum_probs=101.5

Q ss_pred             CCCCCCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccc
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESE  247 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~  247 (709)
                      +.....++|.+..++.|.+.+..          .....+.+.|+|++|+|||+||+.+++.....    ++..+......
T Consensus       111 ~~~~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~la~aia~~~~~~----~~~v~~~~l~~  186 (389)
T 3vfd_A          111 AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNAT----FFNISAASLTS  186 (389)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHTHHHHHCTTTSCGGGCCCSEEEEESSTTSCHHHHHHHHHHHTTCE----EEEECSCCC--
T ss_pred             CCChHHhCCHHHHHHHHHHHHHHhccCHHHhcccCCCCceEEEECCCCCCHHHHHHHHHHhhcCc----EEEeeHHHhhc
Confidence            34456799999999999887732          11224688999999999999999998875322    22221111110


Q ss_pred             ccCCHHHHHHHHHHHhcCCCCCCCCCCh-hHHHHHHHccCceEEEecCCCCh-------------hhhhhhhcCCC----
Q 005191          248 KCGGLVHLRNQVLSKLLGENFDIGTPKI-PQYIRDRLQRMKVFIVLDDVNKY-------------GQLEYFDGGLD----  309 (709)
Q Consensus       248 ~~~~l~~l~~~ll~~l~~~~~~~~~~~~-~~~l~~~L~~kr~LLVLDdv~~~-------------~~~~~l~~~l~----  309 (709)
                      .      ..       +      ..... ...+.......+.+|+||+++..             .....++..+.    
T Consensus       187 ~------~~-------g------~~~~~~~~~~~~a~~~~~~il~iDEid~l~~~~~~~~~~~~~~~~~~ll~~l~~~~~  247 (389)
T 3vfd_A          187 K------YV-------G------EGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQS  247 (389)
T ss_dssp             ------------------------CHHHHHHHHHHHHHSSSEEEEEETGGGGC--------CTHHHHHHHHHHHHHHHC-
T ss_pred             c------cc-------c------hHHHHHHHHHHHHHhcCCeEEEEECchhhcccCCCccchHHHHHHHHHHHHhhcccc
Confidence            0      00       0      00001 11122222346689999999643             01112221111    


Q ss_pred             CCCCCeEEEEEcCchhhhh-h--cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch-HHHHH
Q 005191          310 RFGPGSRIIVTTRDKTILE-R--YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL-ALQVL  385 (709)
Q Consensus       310 ~~~~gsrIIvTTR~~~v~~-~--~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL-AL~~l  385 (709)
                      .......||.||....... .  -.....+.++..+.++-.+++...+.....  ....+....+++.+.|..- +|..+
T Consensus       248 ~~~~~v~vI~atn~~~~l~~~l~~R~~~~i~i~~p~~~~r~~il~~~~~~~~~--~l~~~~~~~la~~~~g~~~~~l~~L  325 (389)
T 3vfd_A          248 AGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGS--PLTQKELAQLARMTDGYSGSDLTAL  325 (389)
T ss_dssp             ----CEEEEEEESCGGGCCHHHHTTCCEEEECCCCCHHHHHHHHHHHHTTSCC--CSCHHHHHHHHHHTTTCCHHHHHHH
T ss_pred             cCCCCEEEEEecCCchhcCHHHHcCcceEEEcCCcCHHHHHHHHHHHHHhcCC--CCCHHHHHHHHHHcCCCCHHHHHHH
Confidence            1123455666665532211 1  123356889999999999998876633221  1223456788888888554 55555


Q ss_pred             hh
Q 005191          386 GS  387 (709)
Q Consensus       386 a~  387 (709)
                      ..
T Consensus       326 ~~  327 (389)
T 3vfd_A          326 AK  327 (389)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>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=98.16  E-value=8.6e-06  Score=85.67  Aligned_cols=179  Identities=14%  Similarity=0.114  Sum_probs=103.3

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |.....++|.+..++.+.+++..+. ..+++.+.|++|+|||++|+.+++.+...   .+.+. .   +.  .+.. ..+
T Consensus        22 P~~~~~ivg~~~~~~~l~~~l~~~~-~~~~~L~~G~~G~GKT~la~~la~~l~~~---~~~i~-~---~~--~~~~-~i~   90 (324)
T 3u61_B           22 PSTIDECILPAFDKETFKSITSKGK-IPHIILHSPSPGTGKTTVAKALCHDVNAD---MMFVN-G---SD--CKID-FVR   90 (324)
T ss_dssp             CCSTTTSCCCHHHHHHHHHHHHTTC-CCSEEEECSSTTSSHHHHHHHHHHHTTEE---EEEEE-T---TT--CCHH-HHH
T ss_pred             CCCHHHHhCcHHHHHHHHHHHHcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhCCC---EEEEc-c---cc--cCHH-HHH
Confidence            3445789999999999999988542 34678888999999999999999876322   12222 1   11  2222 222


Q ss_pred             HHHHHh-cCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh---hhhhhhcCCCCCCCCeEEEEEcCchhh-hhhc-C
Q 005191          258 QVLSKL-LGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG---QLEYFDGGLDRFGPGSRIIVTTRDKTI-LERY-G  331 (709)
Q Consensus       258 ~ll~~l-~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~---~~~~l~~~l~~~~~gsrIIvTTR~~~v-~~~~-~  331 (709)
                      ..+... ....               ..+++.+|++|+++...   ..+.+...+.....+.++|+||....- .... .
T Consensus        91 ~~~~~~~~~~~---------------~~~~~~vliiDEi~~l~~~~~~~~L~~~le~~~~~~~iI~~~n~~~~l~~~l~s  155 (324)
T 3u61_B           91 GPLTNFASAAS---------------FDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQS  155 (324)
T ss_dssp             THHHHHHHBCC---------------CSSCEEEEEEESCCCGGGHHHHHHHHHHHHHHGGGCEEEEEESSGGGSCTTHHH
T ss_pred             HHHHHHHhhcc---------------cCCCCeEEEEECCcccCcHHHHHHHHHHHHhCCCCcEEEEEeCCccccCHHHHh
Confidence            222221 1000               02367899999998654   344444433322356778888766431 1111 1


Q ss_pred             cceEEEecCCChHHHHHHh-------hhcccccCCCChhhH-HHHHHHHHHhcCCchHHHH
Q 005191          332 THRIYEVEGLNCNEALRLF-------CSCAFKENHCPEDLL-KHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       332 ~~~~~~L~~L~~~ea~~Lf-------~~~a~~~~~~~~~~~-~~~~~Iv~~~gGlPLAL~~  384 (709)
                      ...++++++++.++-.+++       ...+.....  .... +....+++.++|.+-.+..
T Consensus       156 R~~~i~~~~~~~~e~~~il~~~~~~l~~~~~~~~~--~~~~~~~~~~l~~~~~gd~R~a~~  214 (324)
T 3u61_B          156 RCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGI--AIADMKVVAALVKKNFPDFRKTIG  214 (324)
T ss_dssp             HSEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHTC--CBSCHHHHHHHHHHTCSCTTHHHH
T ss_pred             hCcEEEeCCCCHHHHHHHHHHHHHHHHHHHHHcCC--CCCcHHHHHHHHHhCCCCHHHHHH
Confidence            2257899999988743332       222211111  1112 5677888889888765433

>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=98.11  E-value=4.5e-05  Score=80.68  Aligned_cols=181  Identities=10%  Similarity=0.050  Sum_probs=99.7

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCC
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENF  268 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~  268 (709)
                      +..+.+...+..+ .-.+.+.++|++|+|||++|+.+++.+.......         ... .+.......+.........
T Consensus         9 ~~~~~l~~~i~~~-~~~~a~L~~G~~G~GKt~~a~~la~~l~~~~~~~---------~~~-c~~c~~c~~~~~~~~~d~~   77 (334)
T 1a5t_A            9 PDFEKLVASYQAG-RGHHALLIQALPGMGDDALIYALSRYLLCQQPQG---------HKS-CGHCRGCQLMQAGTHPDYY   77 (334)
T ss_dssp             HHHHHHHHHHHTT-CCCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---------TBC-CSCSHHHHHHHHTCCTTEE
T ss_pred             HHHHHHHHHHHcC-CcceeEEEECCCCchHHHHHHHHHHHHhCCCCCC---------CCC-CCCCHHHHHHhcCCCCCEE
Confidence            3445555555533 2356789999999999999999998764322100         000 0000001111100000000


Q ss_pred             CCC----CCC-hhH---HHHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hhhhc-C
Q 005191          269 DIG----TPK-IPQ---YIRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-ILERY-G  331 (709)
Q Consensus       269 ~~~----~~~-~~~---~l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~~-~  331 (709)
                      ...    ... ..+   .+.+.+     .+++-++|+|+++.  .+..+.++..+....+++.+|++|.+.. +.... +
T Consensus        78 ~~~~~~~~~~~~i~~ir~l~~~~~~~~~~~~~kvviIdead~l~~~a~naLLk~lEep~~~~~~Il~t~~~~~l~~ti~S  157 (334)
T 1a5t_A           78 TLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRS  157 (334)
T ss_dssp             EECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHT
T ss_pred             EEeccccCCCCCHHHHHHHHHHHhhccccCCcEEEEECchhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHhh
Confidence            000    000 111   222222     24567999999975  3445556655554456677777776653 22221 2


Q ss_pred             cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhh
Q 005191          332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGS  387 (709)
Q Consensus       332 ~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~  387 (709)
                      ....+++++++.++..+.+....    ..   ..+.+..+++.++|.|..+..+..
T Consensus       158 Rc~~~~~~~~~~~~~~~~L~~~~----~~---~~~~~~~l~~~s~G~~r~a~~~l~  206 (334)
T 1a5t_A          158 RCRLHYLAPPPEQYAVTWLSREV----TM---SQDALLAALRLSAGSPGAALALFQ  206 (334)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHC----CC---CHHHHHHHHHHTTTCHHHHHHTTS
T ss_pred             cceeeeCCCCCHHHHHHHHHHhc----CC---CHHHHHHHHHHcCCCHHHHHHHhc
Confidence            33678999999999999988765    11   134567889999999987655443

>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=98.11  E-value=4.5e-05  Score=79.44  Aligned_cols=176  Identities=16%  Similarity=0.190  Sum_probs=99.0

Q ss_pred             CCCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          180 DSDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      .-..++|.+..+++|.+.+..           +-...+.+.|+|++|+|||+||+.++......|   +.+.        
T Consensus        13 ~~~di~G~~~~~~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~Gp~GtGKT~la~ala~~~~~~~---i~v~--------   81 (301)
T 3cf0_A           13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF---ISIK--------   81 (301)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCSEEEEECSSSSSHHHHHHHHHHHTTCEE---EEEC--------
T ss_pred             CHHHhCCHHHHHHHHHHHHHHHhhCHHHHHHcCCCCCceEEEECCCCcCHHHHHHHHHHHhCCCE---EEEE--------
Confidence            345688999888888877642           123456789999999999999999998764221   1111        


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC-
Q 005191          249 CGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR-  310 (709)
Q Consensus       249 ~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~-  310 (709)
                         ...+.    ....+.     ... ....+.......+.+|+||+++...                ....++..+.. 
T Consensus        82 ---~~~l~----~~~~g~-----~~~~~~~~f~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~~~~~lL~~l~~~  149 (301)
T 3cf0_A           82 ---GPELL----TMWFGE-----SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGM  149 (301)
T ss_dssp             ---HHHHH----HHHHTT-----CTTHHHHHHHHHHHTCSEEEEECSTTHHHHHHTTTTCCSSCSCCHHHHHHHHHHHSS
T ss_pred             ---hHHHH----hhhcCc-----hHHHHHHHHHHHHhcCCeEEEEEChHHHhhccCCCcCCcchHHHHHHHHHHHHhhcc
Confidence               11122    222111     112 3333444445678999999997421                11222222211 


Q ss_pred             -CCCCeEEEEEcCchhhhh-h-c---CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH
Q 005191          311 -FGPGSRIIVTTRDKTILE-R-Y---GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       311 -~~~gsrIIvTTR~~~v~~-~-~---~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA  381 (709)
                       ...+..||.||....... . .   .....+.++..+.++-.+++.............   ....++..+.|.|-+
T Consensus       150 ~~~~~v~vi~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~l~~~~~~~~~---~~~~la~~~~g~sg~  223 (301)
T 3cf0_A          150 STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV---DLEFLAKMTNGFSGA  223 (301)
T ss_dssp             CTTSSEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCSSC---CHHHHHHTCSSCCHH
T ss_pred             cCCCCEEEEEecCCccccChHHhcCCccceEEecCCcCHHHHHHHHHHHHccCCCCccc---hHHHHHHHcCCCCHH
Confidence             134567777776553221 1 1   234678999999998888887665222111110   134455566666543

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=98.03  E-value=4.6e-05  Score=84.50  Aligned_cols=149  Identities=15%  Similarity=0.158  Sum_probs=84.4

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-c----ceEEEe-eecccccccCCH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-E----GKYFMA-NVREESEKCGGL  252 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~----~~~~v~-~~~~~~~~~~~l  252 (709)
                      ...+.++||+.+++.+...+...  ...-+.|+|++|+|||+||+.+++.+.... +    ..-++. +..         
T Consensus       177 ~~ld~iiGr~~~i~~l~~~l~r~--~~~~~LL~G~pG~GKT~la~~la~~l~~~~~p~~l~~~~~~~l~~~---------  245 (468)
T 3pxg_A          177 DSLDPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDMG---------  245 (468)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC------------
T ss_pred             CCCCCccCcHHHHHHHHHHHhcc--CCCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeCC---------
Confidence            34567999999999999998753  234567999999999999999999864432 1    111221 110         


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhh-----
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTIL-----  327 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~-----  327 (709)
                              ....    +.........+...-..++.+|++|  ...+....+.+.+.  ....++|.+|......     
T Consensus       246 --------~~~~----g~~e~~~~~~~~~~~~~~~~iLfiD--~~~~a~~~L~~~L~--~g~v~vI~at~~~e~~~~~~~  309 (468)
T 3pxg_A          246 --------TKYR----GEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (468)
T ss_dssp             -------------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             --------cccc----chHHHHHHHHHHHHHhcCCeEEEEe--CchhHHHHHHHhhc--CCCEEEEecCCHHHHHHHhhc
Confidence                    0000    0001113333333334568899999  23333334444443  2345666666554311     


Q ss_pred             -hh-cCcceEEEecCCChHHHHHHhhhcc
Q 005191          328 -ER-YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       328 -~~-~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                       .. .....++.+++++.++..+++....
T Consensus       310 ~~al~~Rf~~i~v~~p~~e~~~~iL~~~~  338 (468)
T 3pxg_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (468)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             CHHHHHhCccceeCCCCHHHHHHHHHHHH
Confidence             11 1122468999999999999987654

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=98.02  E-value=1.8e-05  Score=94.51  Aligned_cols=51  Identities=22%  Similarity=0.290  Sum_probs=42.2

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+.++||+.+++.+...|...  ..+.+.|+|++|+|||+||+.+++.+..
T Consensus       167 ~~ld~viGr~~~i~~l~~~l~~~--~~~~vlL~G~pG~GKT~la~~la~~l~~  217 (854)
T 1qvr_A          167 GKLDPVIGRDEEIRRVIQILLRR--TKNNPVLIGEPGVGKTAIVEGLAQRIVK  217 (854)
T ss_dssp             TCSCCCCSCHHHHHHHHHHHHCS--SCCCCEEEECTTSCHHHHHHHHHHHHHH
T ss_pred             CCCcccCCcHHHHHHHHHHHhcC--CCCceEEEcCCCCCHHHHHHHHHHHHhc
Confidence            34567999999999999998753  2345689999999999999999998744

>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=97.99  E-value=8.7e-05  Score=78.60  Aligned_cols=184  Identities=14%  Similarity=0.192  Sum_probs=103.5

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      ..-..++|.+..++.|...+..+  +...+.++|++|+||||+|+.++..+... +...+.-.+.   +.. .+...+. 
T Consensus        22 ~~~~~~~g~~~~~~~L~~~i~~g--~~~~~ll~Gp~G~GKTtla~~la~~l~~~~~~~~~~~~~~---~~~-~~~~~ir-   94 (340)
T 1sxj_C           22 ETLDEVYGQNEVITTVRKFVDEG--KLPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNA---SDD-RGIDVVR-   94 (340)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHTT--CCCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECT---TSC-CSHHHHH-
T ss_pred             CcHHHhcCcHHHHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHcCCCccceEEEEcC---ccc-ccHHHHH-
Confidence            34456889988888888888754  32238999999999999999999876432 2111111111   110 1222221 


Q ss_pred             HHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hhhh-cCcc
Q 005191          258 QVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-ILER-YGTH  333 (709)
Q Consensus       258 ~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~-~~~~  333 (709)
                      ..+..+.....             .+.+.+-++|+|+++.  .+..+.+...+.......++|++|.... +... .+..
T Consensus        95 ~~i~~~~~~~~-------------~~~~~~~viiiDe~~~l~~~~~~~L~~~le~~~~~~~~il~~n~~~~i~~~i~sR~  161 (340)
T 1sxj_C           95 NQIKDFASTRQ-------------IFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQC  161 (340)
T ss_dssp             THHHHHHHBCC-------------SSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHHHHhhcc-------------cCCCCceEEEEeCCCCCCHHHHHHHHHHHhcCCCCeEEEEEecCccccchhHHhhc
Confidence            11111110000             0112367899999964  3333444433333345667777765442 1111 1122


Q ss_pred             eEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          334 RIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       334 ~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      ..+.+.+++.++..+.+...+-....  .-..+..+.+++.++|.+--+..
T Consensus       162 ~~~~~~~l~~~~~~~~l~~~~~~~~~--~i~~~~~~~i~~~s~G~~r~~~~  210 (340)
T 1sxj_C          162 TRFRFQPLPQEAIERRIANVLVHEKL--KLSPNAEKALIELSNGDMRRVLN  210 (340)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTC--CBCHHHHHHHHHHHTTCHHHHHH
T ss_pred             eeEeccCCCHHHHHHHHHHHHHHcCC--CCCHHHHHHHHHHcCCCHHHHHH
Confidence            47899999999988888765521111  12234577889999998875433

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=97.96  E-value=0.00026  Score=74.75  Aligned_cols=256  Identities=15%  Similarity=0.148  Sum_probs=135.5

Q ss_pred             CCCCccccchhhhHHHhhhhcc---CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIG---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      .-..++|.+..++.+...+..+   ......+.|+|++|+||||||+.++..+...+.    .. .+...   .....+ 
T Consensus        23 ~l~~~~g~~~~~~~l~~~i~~~~~~~~~~~~~ll~Gp~G~GKTTLa~~ia~~l~~~~~----~~-sg~~~---~~~~~l-   93 (334)
T 1in4_A           23 SLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNIH----VT-SGPVL---VKQGDM-   93 (334)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCEE----EE-ETTTC---CSHHHH-
T ss_pred             cHHHccCcHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCEE----EE-echHh---cCHHHH-
Confidence            3456889888788777766532   223467899999999999999999997643221    11 00000   000111 


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCC--------C----------CCeE
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRF--------G----------PGSR  316 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~--------~----------~gsr  316 (709)
                      ..+                    ...+ .++.++++|++...  ...+.+...+...        +          +...
T Consensus        94 ~~~--------------------~~~~-~~~~v~~iDE~~~l~~~~~e~L~~~~~~~~~~i~~~~~~~~~~i~~~l~~~~  152 (334)
T 1in4_A           94 AAI--------------------LTSL-ERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFT  152 (334)
T ss_dssp             HHH--------------------HHHC-CTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCE
T ss_pred             HHH--------------------HHHc-cCCCEEEEcchhhcCHHHHHHHHHHHHhcccceeeccCcccccccccCCCeE
Confidence            011                    1111 23457778887532  2222222111100        0          1122


Q ss_pred             EE-EEcCchhhhhhc--CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhc---
Q 005191          317 II-VTTRDKTILERY--GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFH---  390 (709)
Q Consensus       317 II-vTTR~~~v~~~~--~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~---  390 (709)
                      ++ .|++...+....  .......+++.+.++-.+++.+.+-...  .....+.+..|++.+.|.|-.+..+...+.   
T Consensus       153 li~at~~~~~Ls~~l~sR~~l~~~Ld~~~~~~l~~iL~~~~~~~~--~~~~~~~~~~ia~~~~G~~R~a~~ll~~~~~~a  230 (334)
T 1in4_A          153 LVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD--VEIEDAAAEMIAKRSRGTPRIAIRLTKRVRDML  230 (334)
T ss_dssp             EEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT--CCBCHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             EEEecCCcccCCHHHHHhcCceeeCCCCCHHHHHHHHHHHHHHcC--CCcCHHHHHHHHHhcCCChHHHHHHHHHHHHHH
Confidence            32 344433222111  1224678999999999999987763211  123346688999999999976544433221   


Q ss_pred             ---CC---ChhhHHHHHHHhhcCCCCcHHhHHHHhhcCCCHHHHHHHHhccc-ccc-CcchhHHHHHHhcCCchHHHHHH
Q 005191          391 ---RK---SKPDWVNTLNNLKRISDSDIYGVLKIGYDELSWEEKNLFLDIAC-FFN-GDDREHVMWILNDDYYSVQYGLN  462 (709)
Q Consensus       391 ---~~---~~~ew~~~L~~L~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~lA~-Fp~-~~~~~~l~~l~~~~g~~~~~~l~  462 (709)
                         +.   +.+..+..++.+.            ..-..|+...+..+..++- |.. +...+.+......+....++..+
T Consensus       231 ~~~~~~~It~~~v~~al~~~~------------~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~t~~~~~~  298 (334)
T 1in4_A          231 TVVKADRINTDIVLKTMEVLN------------IDDEGLDEFDRKILKTIIEIYRGGPVGLNALAASLGVEADTLSEVYE  298 (334)
T ss_dssp             HHHTCSSBCHHHHHHHHHHHT------------CCTTCCCHHHHHHHHHHHHHSTTCCBCHHHHHHHHTSCHHHHHHHTH
T ss_pred             HHcCCCCcCHHHHHHHHHHhC------------CCcCCCCHHHHHHHHHHHHHhCCCcchHHHHHHHhCCCcchHHHHHH
Confidence               11   2233333333321            1113566666565554432 322 23556666666554333444444


Q ss_pred             -HHHhCCCeEEe-CCEEEE
Q 005191          463 -VLVNKSLIKIS-YNKLQM  479 (709)
Q Consensus       463 -~L~~rsLI~~~-~~~~~m  479 (709)
                       .|...++|+.. .|+.-.
T Consensus       299 ~~l~~~g~i~~~~~gr~~~  317 (334)
T 1in4_A          299 PYLLQAGFLARTPRGRIVT  317 (334)
T ss_dssp             HHHHHTTSEEEETTEEEEC
T ss_pred             HHHHHcCCeecccccHHhh
Confidence             79999999988 555543

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=97.88  E-value=7.7e-05  Score=82.92  Aligned_cols=180  Identities=16%  Similarity=0.192  Sum_probs=100.0

Q ss_pred             CCCccccchhhhHHHhhhhcc-----------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAIG-----------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~-----------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      ...++|.+..+++|.+++...           ....+-+.|+|++|+|||+||+.+++.....    ++..+........
T Consensus       203 ~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~vLL~GppGtGKT~lAraia~~~~~~----fv~vn~~~l~~~~  278 (489)
T 3hu3_A          203 YDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKL  278 (489)
T ss_dssp             GGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEEEEECSTTSSHHHHHHHHHHHCSSE----EEEEEHHHHHTSC
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECcCCCCHHHHHHHHHHHhCCC----EEEEEchHhhhhh
Confidence            356899999999998877532           2345678999999999999999998875322    2222111111100


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-------------hhhhhhhcCCC--CCCCC
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-------------GQLEYFDGGLD--RFGPG  314 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-------------~~~~~l~~~l~--~~~~g  314 (709)
                      .+  ....                .....+.....+++.+|+||+++..             .....++..+.  ....+
T Consensus       279 ~g--~~~~----------------~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~~~~~~~LL~~ld~~~~~~~  340 (489)
T 3hu3_A          279 AG--ESES----------------NLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (489)
T ss_dssp             TT--HHHH----------------HHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHHHHHHHHHHHHHHHSCTTSC
T ss_pred             cc--hhHH----------------HHHHHHHHHHhcCCcEEEecchhhhccccccccchHHHHHHHHHHHHhhccccCCc
Confidence            00  0000                0222333344567889999999421             11122222221  11345


Q ss_pred             eEEEEEcCchhh-hhh----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC-chHHHHH
Q 005191          315 SRIIVTTRDKTI-LER----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN-PLALQVL  385 (709)
Q Consensus       315 srIIvTTR~~~v-~~~----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl-PLAL~~l  385 (709)
                      ..||.||..... ...    ......+.++..+.++-.+++..++.......+   ....++++.+.|. +-.|..+
T Consensus       341 v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~---~~l~~la~~t~g~s~~dL~~L  414 (489)
T 3hu3_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHVGADLAAL  414 (489)
T ss_dssp             EEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTT---CCHHHHHHTCTTCCHHHHHHH
T ss_pred             eEEEEecCCccccCHHHhCCCcCceEEEeCCCCHHHHHHHHHHHHhcCCCcch---hhHHHHHHHccCCcHHHHHHH
Confidence            566767765532 111    123457899999999999999877632211111   1135566666664 4444443

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.88  E-value=0.00012  Score=78.43  Aligned_cols=173  Identities=19%  Similarity=0.232  Sum_probs=99.3

Q ss_pred             CCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      -..+.|.++..++|.+.+..           +-..++-+.++|++|.|||.||+++++.....|    +...........
T Consensus       147 ~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~sk~  222 (405)
T 4b4t_J          147 YDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCKF----IRVSGAELVQKY  222 (405)
T ss_dssp             GGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCEE----EEEEGGGGSCSS
T ss_pred             HHHhCCHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCceEEeCCCCCCHHHHHHHHHHhhCCCc----eEEEhHHhhccc
Confidence            35688899888888776532           223467789999999999999999999865443    222122211110


Q ss_pred             CC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC--
Q 005191          250 GG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR--  310 (709)
Q Consensus       250 ~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~--  310 (709)
                      .+ -....+                   ..+...-...+++|++|+++...                .+..++..+..  
T Consensus       223 vGese~~vr-------------------~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  283 (405)
T 4b4t_J          223 IGEGSRMVR-------------------ELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFE  283 (405)
T ss_dssp             TTHHHHHHH-------------------HHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTT
T ss_pred             cchHHHHHH-------------------HHHHHHHHhCCceEeeecchhhccCCCCCCCCCcHHHHHHHHHHHHhhhccC
Confidence            11 111111                   11222224578999999996321                12223322221  


Q ss_pred             CCCCeEEEEEcCchhhhh-----hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 FGPGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+..||.||..+....     ....+..+.++..+.++-.++|..+.-+..... ..  ....|++.+.|.-
T Consensus       284 ~~~~V~vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~-dv--dl~~lA~~t~G~S  354 (405)
T 4b4t_J          284 TSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTR-GI--NLRKVAEKMNGCS  354 (405)
T ss_dssp             CCCCEEEEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCS-SC--CHHHHHHHCCSCC
T ss_pred             CCCCeEEEeccCChhhCCHhHcCCCcCceEEEcCCcCHHHHHHHHHHHhcCCCCCc-cC--CHHHHHHHCCCCC
Confidence            134556677776553321     123457889999999988898876653222111 11  1467777887754

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=97.86  E-value=2.3e-05  Score=72.20  Aligned_cols=47  Identities=26%  Similarity=0.184  Sum_probs=37.1

Q ss_pred             CccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          183 GLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .++|+...++++.+.+..-.....-|.|+|++|+|||++|+.+++..
T Consensus         2 ~iiG~s~~~~~~~~~~~~~a~~~~~vll~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A            2 ELIGRSEWINQYRRRLQQLSETDIAVWLYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             --CCSSHHHHHHHHHHHHHTTCCSCEEEESSTTSSHHHHHHHHHHSS
T ss_pred             CceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCCHHHHHHHHHHhC
Confidence            58999999999998886433334557899999999999999998864

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=97.83  E-value=7.4e-05  Score=77.55  Aligned_cols=48  Identities=23%  Similarity=0.182  Sum_probs=37.5

Q ss_pred             CCccccchhhhHHHhhhhc------------cCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          182 DGLIGLESHVEQVRSLLAI------------GLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++|.+..++.+...+..            .......+.|+|++|+|||++|+.+++..
T Consensus        15 ~~i~G~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~l   74 (310)
T 1ofh_A           15 QHIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLA   74 (310)
T ss_dssp             TTCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhhhhcccccccCCCceEEEECCCCCCHHHHHHHHHHHh
Confidence            3588999888888877653            01234568899999999999999999876

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.81  E-value=7.7e-05  Score=75.54  Aligned_cols=180  Identities=15%  Similarity=0.123  Sum_probs=92.7

Q ss_pred             CCCCCccccchhhhHHHhhhhc---c-------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI---G-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~---~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      .....++|.+...+++.+.+..   .       ....+-+.|+|++|+||||||+.+++.....|   +.+. .......
T Consensus         9 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~---~~i~-~~~~~~~   84 (257)
T 1lv7_A            9 TTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTIS-GSDFVEM   84 (257)
T ss_dssp             CCGGGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEEC-SCSSTTS
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHhCHHHHHHcCCCCCCeEEEECcCCCCHHHHHHHHHHHcCCCE---EEEe-HHHHHHH
Confidence            3456788988877777665431   0       11234588999999999999999998753222   2222 1111000


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCCh----------------hhhhhhhcCCCC-
Q 005191          249 CGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKY----------------GQLEYFDGGLDR-  310 (709)
Q Consensus       249 ~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~----------------~~~~~l~~~l~~-  310 (709)
                                        ... .... ....+.......+.++++|+++..                .....++..+.. 
T Consensus        85 ------------------~~~-~~~~~~~~~~~~a~~~~~~il~iDeid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  145 (257)
T 1lv7_A           85 ------------------FVG-VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGF  145 (257)
T ss_dssp             ------------------CCC-CCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTC
T ss_pred             ------------------hhh-hhHHHHHHHHHHHHHcCCeeehhhhhhhhccCCCCCcCCCchHHHHHHHHHHHHhhCc
Confidence                              000 0000 122222333446789999998321                112222221111 


Q ss_pred             -CCCCeEEEEEcCchhhh-hhc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcC-CchHHH
Q 005191          311 -FGPGSRIIVTTRDKTIL-ERY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKG-NPLALQ  383 (709)
Q Consensus       311 -~~~gsrIIvTTR~~~v~-~~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gG-lPLAL~  383 (709)
                       ...+..||.||...... ...    .....+.++..+.++-.+++..+.-.....++   .....++..+.| ++--|.
T Consensus       146 ~~~~~~~vI~~tn~~~~l~~~l~r~~rf~~~i~i~~P~~~~r~~il~~~~~~~~l~~~---~~~~~la~~~~G~~~~dl~  222 (257)
T 1lv7_A          146 EGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPD---IDAAIIARGTPGFSGADLA  222 (257)
T ss_dssp             CSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCCHHHHH
T ss_pred             ccCCCEEEEEeeCCchhCCHHHcCCCcCCeEEEeCCCCHHHHHHHHHHHHhcCCCCcc---ccHHHHHHHcCCCCHHHHH
Confidence             12455677777655322 111    12457788888888877777665422111111   113445666667 554444


Q ss_pred             H
Q 005191          384 V  384 (709)
Q Consensus       384 ~  384 (709)
                      .
T Consensus       223 ~  223 (257)
T 1lv7_A          223 N  223 (257)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.73  E-value=4.4e-05  Score=77.81  Aligned_cols=154  Identities=19%  Similarity=0.263  Sum_probs=83.8

Q ss_pred             CCCCCccccchhhhHHHhhhhc----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      .....++|.+..++.+.+.+..          +....+-+.|+|++|+|||+||+.+++.....|-.   +. ...... 
T Consensus         8 ~~~~~i~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKT~la~~la~~~~~~~~~---v~-~~~~~~-   82 (268)
T 2r62_A            8 VRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFS---MG-GSSFIE-   82 (268)
T ss_dssp             CCSTTSSSCTTTHHHHHHHHHHHHCHHHHHHHSCCCCSCCCCBCSSCSSHHHHHHHHHHHHTCCCCC---CC-SCTTTT-
T ss_pred             CCHHHhCCcHHHHHHHHHHHHHHHChHHHHHCCCCCCceEEEECCCCCcHHHHHHHHHHHhCCCEEE---ec-hHHHHH-
Confidence            3456799999988888876541          11123447899999999999999999876433211   11 000000 


Q ss_pred             cCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh-----------------hhhhhhcCCCCC
Q 005191          249 CGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG-----------------QLEYFDGGLDRF  311 (709)
Q Consensus       249 ~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~-----------------~~~~l~~~l~~~  311 (709)
                                   ...+    .........+......++.+|+||+++...                 .+..++..+...
T Consensus        83 -------------~~~~----~~~~~~~~~~~~a~~~~~~vl~iDEid~l~~~~~~~~~~~~~~~~~~~~~~ll~~l~~~  145 (268)
T 2r62_A           83 -------------MFVG----LGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGF  145 (268)
T ss_dssp             -------------SCSS----SCSSSSSTTHHHHHHSCSCEEEESCGGGTTC----------CCCSCSSTTTTTTTTTCS
T ss_pred             -------------hhcc----hHHHHHHHHHHHHHhcCCeEEEEeChhhhcccccccccCCCchhHHHHHHHHHHHhhCc
Confidence                         0000    011112222333334567899999995421                 123343333221


Q ss_pred             ---CCCeEEEEEcCchhhhh-hc----CcceEEEecCCChHHHHHHhhhcc
Q 005191          312 ---GPGSRIIVTTRDKTILE-RY----GTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       312 ---~~gsrIIvTTR~~~v~~-~~----~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                         .....||.||....... ..    .....+.++..+.++-.+++...+
T Consensus       146 ~~~~~~v~vi~ttn~~~~ld~~l~r~~Rf~~~i~i~~p~~~~r~~il~~~~  196 (268)
T 2r62_A          146 GSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHI  196 (268)
T ss_dssp             SCSCSCCEEEECBSCCTTSCGGGGSSSSSCCCCBCCCCCTTTHHHHHHHHT
T ss_pred             ccCCCCEEEEEecCCchhcCHhHcCCCCCCeEEEecCcCHHHHHHHHHHHH
Confidence               12245666776553211 11    123456777788777777776554

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.73  E-value=0.0002  Score=84.42  Aligned_cols=149  Identities=13%  Similarity=0.134  Sum_probs=85.7

Q ss_pred             CCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc------cceEEEeeecccccccCCH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF------EGKYFMANVREESEKCGGL  252 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f------~~~~~v~~~~~~~~~~~~l  252 (709)
                      ...+.+|||+.+++.+...|...  ...-+.|+|++|+|||++|+.+++.+....      ...++..+.          
T Consensus       177 ~~ld~iiG~~~~i~~l~~~l~~~--~~~~vLL~G~pGtGKT~la~~la~~l~~~~~p~~l~~~~~~~~~~----------  244 (758)
T 3pxi_A          177 DSLDPVIGRSKEIQRVIEVLSRR--TKNNPVLIGEPGVGKTAIAEGLAQQIINNEVPEILRDKRVMTLDM----------  244 (758)
T ss_dssp             SCSCCCCCCHHHHHHHHHHHHCS--SSCEEEEESCTTTTTHHHHHHHHHHHHSSCSCTTTSSCCEECC------------
T ss_pred             CCCCCccCchHHHHHHHHHHhCC--CCCCeEEECCCCCCHHHHHHHHHHHHhcCCCChhhcCCeEEEecc----------
Confidence            34567999999999999998753  234578999999999999999999864321      111221110          


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhh-----
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTIL-----  327 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~-----  327 (709)
                                 +....+.........+......++.+|++|  ...+....+.+.+.  ....++|.||......     
T Consensus       245 -----------g~~~~G~~e~~l~~~~~~~~~~~~~iLfiD--~~~~~~~~L~~~l~--~~~v~~I~at~~~~~~~~~~~  309 (758)
T 3pxi_A          245 -----------GTKYRGEFEDRLKKVMDEIRQAGNIILFID--AAIDASNILKPSLA--RGELQCIGATTLDEYRKYIEK  309 (758)
T ss_dssp             -------------------CTTHHHHHHHHHTCCCCEEEEC--C--------CCCTT--SSSCEEEEECCTTTTHHHHTT
T ss_pred             -----------cccccchHHHHHHHHHHHHHhcCCEEEEEc--CchhHHHHHHHHHh--cCCEEEEeCCChHHHHHHhhc
Confidence                       000000111113344444445678999999  22333334444443  2345677666554311     


Q ss_pred             -hhc-CcceEEEecCCChHHHHHHhhhcc
Q 005191          328 -ERY-GTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       328 -~~~-~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                       ... .....+.+++++.++..+++....
T Consensus       310 d~al~rRf~~i~v~~p~~~~~~~il~~~~  338 (758)
T 3pxi_A          310 DAALERRFQPIQVDQPSVDESIQILQGLR  338 (758)
T ss_dssp             CSHHHHSEEEEECCCCCHHHHHHHHHHTT
T ss_pred             cHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence             100 122568999999999999987554

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=97.72  E-value=0.00014  Score=85.73  Aligned_cols=151  Identities=16%  Similarity=0.183  Sum_probs=87.4

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEeeecccccccCCHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMANVREESEKCGGLV  253 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~~~~~~~~~~~~l~  253 (709)
                      ..+.++||+.+++.+.+.|...  ...-+.|+|++|+|||++|+.+++.+...      ....++........       
T Consensus       184 ~~d~~iGr~~~i~~l~~~l~~~--~~~~vlL~G~~GtGKT~la~~la~~l~~~~v~~~~~~~~~~~~~~~~l~-------  254 (758)
T 1r6b_X          184 GIDPLIGREKELERAIQVLCRR--RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL-------  254 (758)
T ss_dssp             CSCCCCSCHHHHHHHHHHHTSS--SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----------
T ss_pred             CCCCccCCHHHHHHHHHHHhcc--CCCCeEEEcCCCCCHHHHHHHHHHHHHhCCCChhhcCCEEEEEcHHHHh-------
Confidence            4467999999999999998754  34557899999999999999999876432      12233322111110       


Q ss_pred             HHHHHHHHHhcCCCCCCCCCChhHHHH---HHH-ccCceEEEecCCCCh----------hh-hhhhhcCCCCCCCCeEEE
Q 005191          254 HLRNQVLSKLLGENFDIGTPKIPQYIR---DRL-QRMKVFIVLDDVNKY----------GQ-LEYFDGGLDRFGPGSRII  318 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~~~~~~~~~~~l~---~~L-~~kr~LLVLDdv~~~----------~~-~~~l~~~l~~~~~gsrII  318 (709)
                                .+..   ...+....++   +.+ ..++.+|++|+++..          .. ...+...+.  ..+..+|
T Consensus       255 ----------~~~~---~~g~~e~~l~~~~~~~~~~~~~iL~IDEi~~l~~~~~~~~~~~~~~~~L~~~l~--~~~~~~I  319 (758)
T 1r6b_X          255 ----------AGTK---YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVI  319 (758)
T ss_dssp             ----------CCCC---CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEE
T ss_pred             ----------cccc---ccchHHHHHHHHHHHHHhcCCeEEEEechHHHhhcCCCCcchHHHHHHHHHHHh--CCCeEEE
Confidence                      0000   0001112222   222 235789999999754          11 222333333  2345666


Q ss_pred             EEcCchhhhhh-------cCcceEEEecCCChHHHHHHhhhcc
Q 005191          319 VTTRDKTILER-------YGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       319 vTTR~~~v~~~-------~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      .+|........       ......+.+++++.++..+++....
T Consensus       320 ~at~~~~~~~~~~~d~aL~~Rf~~i~v~~p~~~e~~~il~~l~  362 (758)
T 1r6b_X          320 GSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_dssp             EEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             EEeCchHHhhhhhcCHHHHhCceEEEcCCCCHHHHHHHHHHHH
Confidence            66654432111       1122468899999999888886544

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.71  E-value=0.00069  Score=73.72  Aligned_cols=173  Identities=21%  Similarity=0.255  Sum_probs=98.6

Q ss_pred             CCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      -..+.|.+...++|.+.+..           +-..++-|.++|++|+|||.||+++++.....|    +...........
T Consensus       180 ~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~----~~v~~s~l~sk~  255 (437)
T 4b4t_L          180 FDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF----IFSPASGIVDKY  255 (437)
T ss_dssp             SGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE----EEEEGGGTCCSS
T ss_pred             hhHhCChHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeEEEECCCCCcHHHHHHHHHHHhCCCE----EEEehhhhcccc
Confidence            45678899888888776532           223468899999999999999999999865432    222222221110


Q ss_pred             CC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCC--C
Q 005191          250 GG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLD--R  310 (709)
Q Consensus       250 ~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~--~  310 (709)
                      .+ .....                   ...+...-...+++|++|+++...                .+..++..+.  .
T Consensus       256 ~Gese~~i-------------------r~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~  316 (437)
T 4b4t_L          256 IGESARII-------------------REMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFD  316 (437)
T ss_dssp             SSHHHHHH-------------------HHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSS
T ss_pred             chHHHHHH-------------------HHHHHHHHhcCCceeeeecccccccccccCCCCcchHHHHHHHHHHHHhhccc
Confidence            11 01111                   111222234578999999996310                1222332222  1


Q ss_pred             CCCCeEEEEEcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 FGPGSRIIVTTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+..||.||..+..+..     ...+..+.++..+.++-.++|..+..+.......   ....+++.+.|.-
T Consensus       317 ~~~~vivI~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~---dl~~lA~~t~G~s  387 (437)
T 4b4t_L          317 NLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF---DFEAAVKMSDGFN  387 (437)
T ss_dssp             CTTSSEEEEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCC---CHHHHHHTCCSCC
T ss_pred             CCCCeEEEEecCCchhhCHHHhCCCccceeeecCCcCHHHHHHHHHHHhcCCCCCccc---CHHHHHHhCCCCC
Confidence            1245567777765543221     1245678898888888888887665322211111   1456777777754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=97.69  E-value=0.00011  Score=71.48  Aligned_cols=61  Identities=13%  Similarity=0.161  Sum_probs=39.8

Q ss_pred             CCCCccccch----hhhHHHhhhhccCCC--ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          180 DSDGLIGLES----HVEQVRSLLAIGLPD--VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       180 ~~~~~vGR~~----el~~L~~~L~~~~~~--~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+.|++.+.    .++.+.+++......  .+.+.|+|++|+|||+||+.+++....+....+++.
T Consensus        23 ~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~G~~GtGKT~la~~i~~~~~~~~~~~~~~~   89 (202)
T 2w58_A           23 SLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVY   89 (202)
T ss_dssp             CTTSSCCSSHHHHHHHHHHHHHHHHCCSSCCCCEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             CHhhccCCChhHHHHHHHHHHHHHHhhhccCCCeEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE
Confidence            3456776553    334444555432221  278899999999999999999998765544455554

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.67  E-value=0.0012  Score=71.67  Aligned_cols=172  Identities=16%  Similarity=0.179  Sum_probs=98.1

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ..+.|.++..++|.+.+..           +-..++-|.++|++|+|||.||+++++.....|    +............
T Consensus       209 ~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~f----i~vs~s~L~sk~v  284 (467)
T 4b4t_H          209 SDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATF----IRVIGSELVQKYV  284 (467)
T ss_dssp             SSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCCCSS
T ss_pred             HHhccHHHHHHHHHHHHHHHhcCHHHHHHCCCCCCCceEeeCCCCCcHHHHHHHHHhccCCCe----EEEEhHHhhcccC
Confidence            5688999888888775431           223478899999999999999999999865443    2221222111101


Q ss_pred             C-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC--C
Q 005191          251 G-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR--F  311 (709)
Q Consensus       251 ~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~--~  311 (709)
                      + -....                   ...+...-...+++|++|+++...                ....++..+..  .
T Consensus       285 Gesek~i-------------------r~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~  345 (467)
T 4b4t_H          285 GEGARMV-------------------RELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDP  345 (467)
T ss_dssp             SHHHHHH-------------------HHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCC
T ss_pred             CHHHHHH-------------------HHHHHHHHhcCCceEeecccccccccccCcCCCccHHHHHHHHHHHHHhhccCC
Confidence            1 01111                   112222234578999999996321                11122222211  1


Q ss_pred             CCCeEEEEEcCchhhhh-----hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          312 GPGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ..+..||.||.....+.     ....+..+.++..+.++-.++|..+.-+..... ..  ....|++.|.|.-
T Consensus       346 ~~~ViVIaATNrpd~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~-dv--dl~~LA~~T~GfS  415 (467)
T 4b4t_H          346 RGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVER-GI--RWELISRLCPNST  415 (467)
T ss_dssp             TTTEEEEEECSCTTSBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCS-SC--CHHHHHHHCCSCC
T ss_pred             CCcEEEEeCCCCcccCChhhhccccccEEEEeCCcCHHHHHHHHHHHhcCCCCCC-CC--CHHHHHHHCCCCC
Confidence            34556677775553221     113457889999999988888876663221111 11  1456777787753

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.66  E-value=0.00043  Score=75.19  Aligned_cols=173  Identities=20%  Similarity=0.212  Sum_probs=92.3

Q ss_pred             CCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      -..+.|.+...++|.+.+..           +-..++-+.++|++|+|||+||+++++.....|    +...........
T Consensus       171 ~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~----~~v~~~~l~~~~  246 (428)
T 4b4t_K          171 YADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAF----IRVNGSEFVHKY  246 (428)
T ss_dssp             GGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEE----EEEEGGGTCCSS
T ss_pred             HHHhccHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCceEEEECCCCCCHHHHHHHHHHHhCCCe----EEEecchhhccc
Confidence            35688999888888776532           223467899999999999999999999865432    222222211110


Q ss_pred             CC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh------------h----hhhhhhcCCC--C
Q 005191          250 GG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY------------G----QLEYFDGGLD--R  310 (709)
Q Consensus       250 ~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~------------~----~~~~l~~~l~--~  310 (709)
                      .+ .....+                   ..+...-...++++++|+++..            .    .+..++..+.  .
T Consensus       247 ~Ge~e~~ir-------------------~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~  307 (428)
T 4b4t_K          247 LGEGPRMVR-------------------DVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFD  307 (428)
T ss_dssp             CSHHHHHHH-------------------HHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSC
T ss_pred             cchhHHHHH-------------------HHHHHHHHcCCCeeechhhhhhhccccCCCCCCChHHHHHHHHHHHHhhCCC
Confidence            11 111111                   1222223457899999998421            0    1222322221  1


Q ss_pred             CCCCeEEEEEcCchhhhh-----hcCcceEEEecCCChHH-HHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 FGPGSRIIVTTRDKTILE-----RYGTHRIYEVEGLNCNE-ALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~~-----~~~~~~~~~L~~L~~~e-a~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+..||.||..+....     ....+..++++.++..+ -.++|..+.-+....++.   ....+++.+.|.-
T Consensus       308 ~~~~v~vI~aTN~~~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~---dl~~lA~~t~G~s  379 (428)
T 4b4t_K          308 QSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEA---DLDSLIIRNDSLS  379 (428)
T ss_dssp             SSCSEEEEEEESCSSSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTC---CHHHHHHHTTTCC
T ss_pred             CCCCEEEEEecCChhhcChhhhcCCcceEEEEcCCCCCHHHHHHHHHHHhcCCCCCccc---CHHHHHHHCCCCC
Confidence            134566777776553221     11234667887665544 455555444221111111   1466777777753

>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=97.66  E-value=7.3e-05  Score=71.31  Aligned_cols=26  Identities=23%  Similarity=0.298  Sum_probs=23.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+.|+|++|+||||||+.++..+.
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~~   63 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAIY   63 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999999875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.65  E-value=0.00064  Score=73.91  Aligned_cols=173  Identities=14%  Similarity=0.170  Sum_probs=98.2

Q ss_pred             CCCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccc
Q 005191          180 DSDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEK  248 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~  248 (709)
                      .-..+.|.+...++|.+.+..           +-..++-|.++|++|+|||.||++++......|    +..........
T Consensus       179 t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f----~~v~~s~l~~~  254 (434)
T 4b4t_M          179 TYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATF----LKLAAPQLVQM  254 (434)
T ss_dssp             CGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE----EEEEGGGGCSS
T ss_pred             ChHhcCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCeeEEECcCCCCHHHHHHHHHHHhCCCE----EEEehhhhhhc
Confidence            346788999888888775421           223467899999999999999999999864432    22222222111


Q ss_pred             cCC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-------h---------hhhhhhcCCCCC
Q 005191          249 CGG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-------G---------QLEYFDGGLDRF  311 (709)
Q Consensus       249 ~~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-------~---------~~~~l~~~l~~~  311 (709)
                      ..+ -....+.+                   +...-...+++|++|+++..       .         .+..++..+...
T Consensus       255 ~vGese~~ir~l-------------------F~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~  315 (434)
T 4b4t_M          255 YIGEGAKLVRDA-------------------FALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGF  315 (434)
T ss_dssp             CSSHHHHHHHHH-------------------HHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTS
T ss_pred             ccchHHHHHHHH-------------------HHHHHhcCCeEEeecchhhhhhccCCCCCCCchHHHHHHHHHHHHhhcc
Confidence            111 11111111                   12222357899999998521       0         112233333222


Q ss_pred             --CCCeEEEEEcCchhhhh-h----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCC
Q 005191          312 --GPGSRIIVTTRDKTILE-R----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGN  378 (709)
Q Consensus       312 --~~gsrIIvTTR~~~v~~-~----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGl  378 (709)
                        ..+..||.||..+..+. .    ...+..+.++..+.++-.++|..+.-+-..... .  ....|++.+.|.
T Consensus       316 ~~~~~ViVIaaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d-v--dl~~lA~~t~G~  386 (434)
T 4b4t_M          316 SSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDD-I--NWQELARSTDEF  386 (434)
T ss_dssp             CSSCSSEEEEECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSC-C--CHHHHHHHCSSC
T ss_pred             CCCCCEEEEEeCCCchhcCHhHhcCCceeEEEEeCCcCHHHHHHHHHHHhcCCCCCCc-C--CHHHHHHhCCCC
Confidence              23456676776654322 1    134578899988988888888766532221111 1  146677777775

>2gno_A DNA polymerase III, gamma subunit-related protein; structural genomics, joint center for structural genomics, J protein structure initiative; HET: DNA; 2.00A {Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20

Probab=97.65  E-value=0.00021  Score=74.45  Aligned_cols=145  Identities=11%  Similarity=0.025  Sum_probs=88.4

Q ss_pred             cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh---hcccceEEEeeecccccccCCHHHHHHHHHHHh
Q 005191          187 LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS---QKFEGKYFMANVREESEKCGGLVHLRNQVLSKL  263 (709)
Q Consensus       187 R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~---~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l  263 (709)
                      -++.++.|.+.+..+.  .+.+.++|++|+||||+|..+++...   ...+....+..    .....++..+ +++....
T Consensus         2 ~~~~~~~L~~~i~~~~--~~~~Lf~Gp~G~GKtt~a~~la~~~~~~~~~~~d~~~l~~----~~~~~~id~i-r~li~~~   74 (305)
T 2gno_A            2 AKDQLETLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDP----EGENIGIDDI-RTIKDFL   74 (305)
T ss_dssp             --CHHHHHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECC----SSSCBCHHHH-HHHHHHH
T ss_pred             hHHHHHHHHHHHHCCC--CcEEEEECCCCCCHHHHHHHHHHhCchhhccCCCEEEEcC----CcCCCCHHHH-HHHHHHH
Confidence            3455667777776543  67899999999999999999987531   12233333331    1101222222 2343333


Q ss_pred             cCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhcCcceEEEecC
Q 005191          264 LGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERYGTHRIYEVEG  340 (709)
Q Consensus       264 ~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~~~~~~~~L~~  340 (709)
                      .....               .+++-++|+|+++.  .+..+.++..+....+.+.+|++|.++ .+.+..... ++++++
T Consensus        75 ~~~p~---------------~~~~kvviIdead~lt~~a~naLLk~LEep~~~t~fIl~t~~~~kl~~tI~SR-~~~f~~  138 (305)
T 2gno_A           75 NYSPE---------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVV  138 (305)
T ss_dssp             TSCCS---------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEEC
T ss_pred             hhccc---------------cCCceEEEeccHHHhCHHHHHHHHHHHhCCCCCeEEEEEECChHhChHHHHce-eEeCCC
Confidence            21110               23466899999974  445566666555445677877776554 344433334 899999


Q ss_pred             CChHHHHHHhhhcc
Q 005191          341 LNCNEALRLFCSCA  354 (709)
Q Consensus       341 L~~~ea~~Lf~~~a  354 (709)
                      ++.++..+.+.+..
T Consensus       139 l~~~~i~~~L~~~~  152 (305)
T 2gno_A          139 NVPKEFRDLVKEKI  152 (305)
T ss_dssp             CCCHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999987765

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=97.63  E-value=0.00032  Score=72.92  Aligned_cols=49  Identities=16%  Similarity=0.255  Sum_probs=38.6

Q ss_pred             CccccchhhhHHHhhhhccC-------CCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          183 GLIGLESHVEQVRSLLAIGL-------PDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .++|.+..++.+...+....       .....+.|+|++|+|||++|+.+++....
T Consensus        18 ~i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~ll~G~~GtGKt~la~~la~~~~~   73 (311)
T 4fcw_A           18 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD   73 (311)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTCSCTTSCSEEEEEESCSSSSHHHHHHHHHHHHHS
T ss_pred             hcCCHHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCcCHHHHHHHHHHHHcC
Confidence            58899988888888776421       11358999999999999999999997644

>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two component system, AAA domain, NTRC family, DNA-binding; HET: ATP; 3.0A {Salmonella typhimurium}

Probab=97.59  E-value=0.00019  Score=74.75  Aligned_cols=48  Identities=23%  Similarity=0.281  Sum_probs=39.0

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.++|+...+.++.+.+.........|.|+|++|+|||++|+.+++..
T Consensus         2 ~~iig~s~~~~~~~~~~~~~a~~~~~vLi~Ge~GtGKt~lAr~i~~~~   49 (304)
T 1ojl_A            2 SHMIGSSPAMQHLLNEIAMVAPSDATVLIHGDSGTGKELVARALHACS   49 (304)
T ss_dssp             -CCCCCSHHHHHHHHHHHHHCSTTSCEEEESCTTSCHHHHHHHHHHHS
T ss_pred             CCcEECCHHHHHHHHHHHHHhCCCCcEEEECCCCchHHHHHHHHHHhC
Confidence            458999999999988887533344567899999999999999998854

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=97.54  E-value=0.0008  Score=74.24  Aligned_cols=174  Identities=14%  Similarity=0.156  Sum_probs=95.1

Q ss_pred             CCCccccchhhhHHHhhhhc--c--------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          181 SDGLIGLESHVEQVRSLLAI--G--------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ...++|.++.++++.+....  .        ..-.+-+.|+|++|+|||+||+.++......|    +............
T Consensus        15 f~di~G~~~~~~~l~e~v~~l~~~~~~~~~g~~~p~gvLL~GppGtGKT~Laraia~~~~~~f----~~is~~~~~~~~~   90 (476)
T 2ce7_A           15 FKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPF----FHISGSDFVELFV   90 (476)
T ss_dssp             GGGCCSCHHHHHHHHHHHHHHHCTHHHHTTTCCCCSEEEEECCTTSSHHHHHHHHHHHHTCCE----EEEEGGGTTTCCT
T ss_pred             HHHhCCcHHHHHHHHHHHHHhhChHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHcCCCe----eeCCHHHHHHHHh
Confidence            35688888877777665431  0        11234588999999999999999998753322    2111111111100


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh----------------hhhhhhhcCCCC--CC
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY----------------GQLEYFDGGLDR--FG  312 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~----------------~~~~~l~~~l~~--~~  312 (709)
                      +..                  .......+.......+.+|+||+++..                ..+..++..+..  ..
T Consensus        91 g~~------------------~~~~r~lf~~A~~~~p~ILfIDEid~l~~~r~~~~~g~~~~~~~~l~~LL~~ld~~~~~  152 (476)
T 2ce7_A           91 GVG------------------AARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSK  152 (476)
T ss_dssp             THH------------------HHHHHHHHHHHHHTCSEEEEEETGGGTCCC---------CHHHHHHHHHHHHHHHSCGG
T ss_pred             ccc------------------HHHHHHHHHHHHhcCCCEEEEechhhhhhhcccccCcCcHHHHHHHHHHHHHHhccCCC
Confidence            000                  000222334444567899999999532                122333322211  12


Q ss_pred             CCeEEEEEcCchhhhh-h-c---CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          313 PGSRIIVTTRDKTILE-R-Y---GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       313 ~gsrIIvTTR~~~v~~-~-~---~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .+..||.||..+..+. . .   .....+.++..+.++-.+++..++-.....++.   ....+++.+.|+.
T Consensus       153 ~~viVIaaTn~~~~Ld~allR~gRFd~~i~i~~Pd~~~R~~Il~~~~~~~~l~~~v---~l~~la~~t~G~s  221 (476)
T 2ce7_A          153 EGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV---NLEIIAKRTPGFV  221 (476)
T ss_dssp             GTEEEEEEESCGGGSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCTTC---CHHHHHHTCTTCC
T ss_pred             CCEEEEEecCChhhhchhhcccCcceeEeecCCCCHHHHHHHHHHHHHhCCCcchh---hHHHHHHhcCCCc
Confidence            4567777776664332 1 1   233578888888888778876655222111111   1345777788876

>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding, chromatin regulator, growth regulation, hydrolase, nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo sapiens} PDB: 2xsz_A*

Probab=97.51  E-value=0.0019  Score=71.23  Aligned_cols=50  Identities=26%  Similarity=0.313  Sum_probs=38.5

Q ss_pred             CCCccccchhhhHHHhhhh---ccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          181 SDGLIGLESHVEQVRSLLA---IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~---~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...++|.+...+.+..++.   .+....+-+.++|++|+|||+||+.+++.+.
T Consensus        36 ~~~iiG~~~~~~~l~~~~~~~~~~~~~~~~iLl~GppGtGKT~la~ala~~l~   88 (456)
T 2c9o_A           36 ASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG   88 (456)
T ss_dssp             ETTEESCHHHHHHHHHHHHHHHTTCCTTCEEEEECCTTSSHHHHHHHHHHHHC
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhCCCCCCeEEEECCCcCCHHHHHHHHHHHhC
Confidence            4779999988776655443   3333346788999999999999999998764

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=97.49  E-value=0.00038  Score=70.75  Aligned_cols=49  Identities=29%  Similarity=0.230  Sum_probs=35.9

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..++|.+..+..+.+.+.........+.|+|++|+|||+||+.+++...
T Consensus         6 ~~~ig~~~~~~~~~~~~~~~~~~~~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A            6 DNLLGEANSFLEVLEQVSHLAPLDKPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             ----CCCHHHHHHHHHHHHHTTSCSCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             ccceeCCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhcC
Confidence            4589999999988877654222345678999999999999999998654

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.47  E-value=0.0018  Score=69.67  Aligned_cols=173  Identities=20%  Similarity=0.229  Sum_probs=97.1

Q ss_pred             CCCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          181 SDGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      -..+.|.++..++|.+.+..           +-...+-|.++|++|.|||.||++++......|    +.....+.....
T Consensus       181 ~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~f----i~v~~s~l~sk~  256 (437)
T 4b4t_I          181 YSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATF----LRIVGSELIQKY  256 (437)
T ss_dssp             GGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEE----EEEESGGGCCSS
T ss_pred             ceecCcHHHHHHHHHHHHHHHHhCHHHHHhCCCCCCCCCceECCCCchHHHHHHHHHHHhCCCE----EEEEHHHhhhcc
Confidence            35677888888888776531           223467899999999999999999999865443    222222211111


Q ss_pred             CC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCC--C
Q 005191          250 GG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLD--R  310 (709)
Q Consensus       250 ~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~--~  310 (709)
                      .+ .....+.                   .+...-...+++|++|+++...                .+..++..+.  .
T Consensus       257 vGesek~ir~-------------------lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~  317 (437)
T 4b4t_I          257 LGDGPRLCRQ-------------------IFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFD  317 (437)
T ss_dssp             SSHHHHHHHH-------------------HHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCC
T ss_pred             CchHHHHHHH-------------------HHHHHHhcCCcEEEEehhhhhcccCCCCCCCccHHHHHHHHHHHHHhhCcC
Confidence            11 1111111                   1222224578999999986310                1122322221  1


Q ss_pred             CCCCeEEEEEcCchhhhh-hc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 FGPGSRIIVTTRDKTILE-RY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~~-~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+..||.||.....+. .+    ..+..+.++..+.++-.++|..+.-+...... .  ....|++.+.|.-
T Consensus       318 ~~~~ViVIaATNrpd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~d-v--dl~~LA~~T~GfS  388 (437)
T 4b4t_I          318 DRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSED-V--NLETLVTTKDDLS  388 (437)
T ss_dssp             CSSSEEEEEEESCSTTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSC-C--CHHHHHHHCCSCC
T ss_pred             CCCCEEEEEeCCChhhcCHHHhcCCceeEEEEcCCcCHHHHHHHHHHHhcCCCCCCc-C--CHHHHHHhCCCCC
Confidence            134556777776554332 11    23467888888888888888776632221111 0  1456777777653

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=97.37  E-value=4.3e-05  Score=70.22  Aligned_cols=48  Identities=13%  Similarity=0.053  Sum_probs=34.9

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      -.++|++..++++.+.+..-.....-|.|+|++|+|||++|+.+++..
T Consensus         4 ~~~iG~s~~~~~l~~~~~~~~~~~~~vll~G~~GtGKt~lA~~i~~~~   51 (143)
T 3co5_A            4 FDKLGNSAAIQEMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKNG   51 (143)
T ss_dssp             ----CCCHHHHHHHHHHHHHHTCSSCEEEEEETTCCHHHHHGGGCCTT
T ss_pred             cCceeCCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhC
Confidence            358999999999888876422233457899999999999999887754

>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=97.29  E-value=0.00068  Score=79.18  Aligned_cols=172  Identities=17%  Similarity=0.228  Sum_probs=97.1

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ..+.|.++.+++|.+.+..           +-..++-|.++|++|+|||+||+.++++...+|    +..+..+......
T Consensus       204 ~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~----~~v~~~~l~sk~~  279 (806)
T 3cf2_A          204 DDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF----FLINGPEIMSKLA  279 (806)
T ss_dssp             GGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEE----EEEEHHHHHSSCT
T ss_pred             hhhcCHHHHHHHHHHHHHHHccCHHHHhhcCCCCCCeEEEECCCCCCHHHHHHHHHHHhCCeE----EEEEhHHhhcccc
Confidence            4578899988888876531           112367899999999999999999998764332    2221111111000


Q ss_pred             C-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh-------------hhhhhhcCCCCC--CCC
Q 005191          251 G-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG-------------QLEYFDGGLDRF--GPG  314 (709)
Q Consensus       251 ~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~~l~~~--~~g  314 (709)
                      + ....                   +...+.......+.+|+||+++...             ....++..+...  ..+
T Consensus       280 gese~~-------------------lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~riv~~LL~~mdg~~~~~~  340 (806)
T 3cf2_A          280 GESESN-------------------LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH  340 (806)
T ss_dssp             THHHHH-------------------HHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHHHHHHHHTHHHHCCGGGC
T ss_pred             hHHHHH-------------------HHHHHHHHHHcCCeEEEEehhcccccccCCCCChHHHHHHHHHHHHHhcccccCC
Confidence            0 0011                   2222333335678999999995311             122222222111  234


Q ss_pred             eEEEEEcCchhhhh-hc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          315 SRIIVTTRDKTILE-RY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       315 srIIvTTR~~~v~~-~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ..||.||....... .+    .-.+.++++..+.++-.++|..+.-+.....+   .....|++.+.|.-
T Consensus       341 V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~d---vdl~~lA~~T~Gfs  407 (806)
T 3cf2_A          341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD---VDLEQVANETHGHV  407 (806)
T ss_dssp             EEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTT---CCHHHHHHHCCSCC
T ss_pred             EEEEEecCChhhcCHHHhCCcccceEEecCCCCHHHHHHHHHHHhcCCCCCcc---cCHHHHHHhcCCCC
Confidence            45666665543221 11    23568899999999888888776632211111   11567788887764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.22  E-value=0.00046  Score=63.83  Aligned_cols=28  Identities=21%  Similarity=0.424  Sum_probs=24.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....+.|+|++|+|||||++.++.....
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~~~   62 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQALE   62 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3468899999999999999999987654

>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 6.93A {Bacillus subtilis}

Probab=97.19  E-value=0.0009  Score=78.76  Aligned_cols=149  Identities=15%  Similarity=0.154  Sum_probs=81.6

Q ss_pred             CCccccchhhhHHHhhhhccC-------CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGL-------PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      ..++|.+..++.+...+....       .....+.++|++|+|||++|+.+++.....-...+.+. ...........  
T Consensus       491 ~~viGq~~a~~~l~~~i~~~~~~~~~~~~p~~~~Ll~Gp~GtGKT~lA~ala~~l~~~~~~~i~i~-~s~~~~~~~~~--  567 (758)
T 3pxi_A          491 SRVIGQDEAVVAVAKAVRRARAGLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRID-MSEYMEKHSTS--  567 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHTTTCSCTTSCSEEEEEESCTTSSHHHHHHHHHHHHHSCTTCEEEEE-GGGGCSSCCCC--
T ss_pred             CcCcChHHHHHHHHHHHHHHHcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcCCCcceEEEe-chhcccccccc--
Confidence            568999998888888776321       11237899999999999999999997643322333333 22222210000  


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCC-----------CCCCeEEEEEc
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDR-----------FGPGSRIIVTT  321 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~-----------~~~gsrIIvTT  321 (709)
                                       .......++   .....+|+||+++.  .+....++..+..           ...+.+||+||
T Consensus       568 -----------------~~~l~~~~~---~~~~~vl~lDEi~~~~~~~~~~Ll~~le~g~~~~~~g~~~~~~~~~iI~tt  627 (758)
T 3pxi_A          568 -----------------GGQLTEKVR---RKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTILIMTS  627 (758)
T ss_dssp             --------------------CHHHHH---HCSSSEEEEECGGGSCHHHHHHHHHHHHHSBCC-----CCBCTTCEEEEEE
T ss_pred             -----------------cchhhHHHH---hCCCeEEEEeCccccCHHHHHHHHHHhccCeEEcCCCCEeccCCeEEEEeC
Confidence                             001222222   12345999999964  2333333322211           12356888888


Q ss_pred             Cchh-----h----hhhc------CcceEEEecCCChHHHHHHhhhc
Q 005191          322 RDKT-----I----LERY------GTHRIYEVEGLNCNEALRLFCSC  353 (709)
Q Consensus       322 R~~~-----v----~~~~------~~~~~~~L~~L~~~ea~~Lf~~~  353 (709)
                      ....     +    ...+      ..+.++.+++|+.++-.+++...
T Consensus       628 n~~~~~~~~~~~~~~~~f~p~l~~Rl~~~i~~~~l~~~~~~~i~~~~  674 (758)
T 3pxi_A          628 NVGASEKDKVMGELKRAFRPEFINRIDEIIVFHSLEKKHLTEIVSLM  674 (758)
T ss_dssp             SSSTTCCHHHHHHHHHHSCHHHHTTSSEEEECC--CHHHHHHHHHHH
T ss_pred             CCChhhHHHHHHHHHhhCCHHHHhhCCeEEecCCCCHHHHHHHHHHH
Confidence            7310     0    0001      12357888999888877776544

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=97.15  E-value=0.0012  Score=68.27  Aligned_cols=27  Identities=33%  Similarity=0.644  Sum_probs=24.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .++.+.|+|++|+|||+||+.+++.+.
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l~   61 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKMG   61 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457888999999999999999999874

>1eiw_A Hypothetical protein MTH538; CHEY-like fold, flavodoxin-like fold, (A/B)5 doubly wound fold, parallel beta sheet; NMR {Methanothermobacterthermautotrophicus} SCOP: c.23.3.1

Probab=97.12  E-value=0.00045  Score=60.06  Aligned_cols=73  Identities=7%  Similarity=0.047  Sum_probs=53.4

Q ss_pred             CCcceEEecCCcccccCchHHHHHHHHHhCCCceEEcCCCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHHHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDEELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDELVK   82 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~~~L~~~L~~~g~~~~~d~~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El~~   82 (709)
                      ..+|.+||||+.+| .   .+.|...|.+.|+..- |              +.|+.|.++|++.++....|+||..|+..
T Consensus         2 ~~~~~lFISh~~~d-~---~~~L~~~l~~~~f~~~-~--------------~~I~~~~~vIvL~G~~t~~s~wv~~EI~~   62 (111)
T 1eiw_A            2 TAEIRLYITEGEVE-D---YRVFLERLEQSGLEWR-P--------------ATPEDADAVIVLAGLWGTRRDEILGAVDL   62 (111)
T ss_dssp             CCCEEEEECCCCSH-H---HHHHHHHHHHHCSCEE-E--------------CCSSSCSEEEEEGGGTTTSHHHHHHHHHH
T ss_pred             CceEEEEEecccHh-H---HHHHHHHHhCCCCeee-c--------------CccccCCEEEEEeCCCcCCChHHHHHHHH
Confidence            35799999999998 2   4555555555565332 2              45778999999999999999999999976


Q ss_pred             HHHhhhhCCceeEeEE
Q 005191           83 ILKCHKKNIQLVIPIF   98 (709)
Q Consensus        83 ~~~~~~~~~~~vlPvf   98 (709)
                      +.    +.+..|+-|.
T Consensus        63 A~----~~gkpIigV~   74 (111)
T 1eiw_A           63 AR----KSSKPIITVR   74 (111)
T ss_dssp             HT----TTTCCEEEEC
T ss_pred             HH----HcCCCEEEEE
Confidence            54    3445566553

>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=97.10  E-value=0.0039  Score=62.63  Aligned_cols=51  Identities=22%  Similarity=0.267  Sum_probs=34.1

Q ss_pred             CCCCccccchhhhHHHhhhhc--c--------CCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          180 DSDGLIGLESHVEQVRSLLAI--G--------LPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~--~--------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+.++|.+....++.+....  .        -.-.+-+.|+|++|+|||||++.++....
T Consensus        14 ~~~~i~g~~~~~~~l~~l~~~~~~~~~~~~~~~~~~~g~ll~G~~G~GKTtl~~~i~~~~~   74 (254)
T 1ixz_A           14 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   74 (254)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CHHHhCCcHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            345677877666555544321  0        01122389999999999999999998764

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.94  E-value=0.0025  Score=65.20  Aligned_cols=52  Identities=21%  Similarity=0.213  Sum_probs=35.8

Q ss_pred             CCCCCccccchhhhHHHhhhhcc-C---------CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIG-L---------PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~-~---------~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+.++|.+...+++.+....- .         .-.+-+.|+|++|+|||||++.++....
T Consensus        37 ~~~~~i~g~~~~~~~l~~l~~~~~~~~~l~~~~~~~~~gvll~Gp~GtGKTtl~~~i~~~~~   98 (278)
T 1iy2_A           37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR   98 (278)
T ss_dssp             CCGGGSSSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCCEEEEECCTTSSHHHHHHHHHHHTT
T ss_pred             CCHHHhCChHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEEECCCcChHHHHHHHHHHHcC
Confidence            34456888887766666544210 0         0122389999999999999999998764

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.90  E-value=0.0034  Score=69.57  Aligned_cols=171  Identities=15%  Similarity=0.149  Sum_probs=91.1

Q ss_pred             CCCCccccchhhhHHHhhhhc---c-------CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          180 DSDGLIGLESHVEQVRSLLAI---G-------LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~---~-------~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      ....++|.+....++.+....   .       -.-.+-+.|+|++|+|||+||+.++......   .+.+. ........
T Consensus        29 ~f~dv~G~~~~k~~l~~lv~~l~~~~~~~~lg~~ip~GvLL~GppGtGKTtLaraIa~~~~~~---~i~i~-g~~~~~~~  104 (499)
T 2dhr_A           29 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITAS-GSDFVEMF  104 (499)
T ss_dssp             CTTSSCSCHHHHHHHHHHHHHHHCGGGTTTTSCCCCSEEEEECSSSSSHHHHHHHHHHHTTCC---EEEEE-GGGGTSSC
T ss_pred             CHHHcCCcHHHHHHHHHHHHHhhchhhhhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC---EEEEe-hhHHHHhh
Confidence            446788988877766655421   0       0112348999999999999999999875421   12222 11111110


Q ss_pred             CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc----cCceEEEecCCCCh----------------hhhhhhhcCCC
Q 005191          250 GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ----RMKVFIVLDDVNKY----------------GQLEYFDGGLD  309 (709)
Q Consensus       250 ~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~----~kr~LLVLDdv~~~----------------~~~~~l~~~l~  309 (709)
                      .+.                      ....++..++    ..+.++++|+++..                ..+..++..+.
T Consensus       105 ~g~----------------------~~~~v~~lfq~a~~~~p~il~IDEId~l~~~r~~~~~~~~~e~~~~l~~LL~~Ld  162 (499)
T 2dhr_A          105 VGV----------------------GAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMD  162 (499)
T ss_dssp             TTH----------------------HHHHHHHHTTTSSSSSSCEEEEECGGGTCCCSSSSTTTSSHHHHHHHHHHHHHGG
T ss_pred             hhh----------------------HHHHHHHHHHHHHhcCCCEEEEehHHHHHHhhccCcCCCcHHHHHHHHHHHHHhc
Confidence            000                      1122222222    23579999999531                11233333332


Q ss_pred             CC--CCCeEEEEEcCchhhhhh-----cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          310 RF--GPGSRIIVTTRDKTILER-----YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       310 ~~--~~gsrIIvTTR~~~v~~~-----~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .+  ..+..++.||..+..+..     ......+.++..+.++-.+++..++-+....++.   ....+++.+.|+.
T Consensus       163 g~~~~~~viviAatn~p~~LD~aLlr~gRfdr~i~i~~Pd~~~R~~IL~~~~~~~~l~~dv---~l~~lA~~t~G~~  236 (499)
T 2dhr_A          163 GFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV---DLALLAKRTPGFV  236 (499)
T ss_dssp             GCCSSCCCEEEECCSCGGGSCTTTSSTTSSCCEEECCCCCHHHHHHHHHHTTSSSCCCCSS---TTHHHHTTSCSCC
T ss_pred             ccccCccEEEEEecCChhhcCcccccccccceEEecCCCCHHHHHHHHHHHHhcCCCChHH---HHHHHHHhcCCCC
Confidence            11  233455666666544321     1234578899999888888887665221111111   1345667777765

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=96.87  E-value=0.0066  Score=64.91  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+.|+|++|+|||++|+.+++.+
T Consensus        72 ~~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           72 KSNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHh
Confidence            4568899999999999999999876

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.56  E-value=0.012  Score=60.03  Aligned_cols=124  Identities=16%  Similarity=0.079  Sum_probs=66.3

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH-HccC
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR-LQRM  286 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~-L~~k  286 (709)
                      +.|+|++|+||||||+.++......   .+.+. .......  ......+                 ....+.+. -...
T Consensus        47 vlL~Gp~GtGKTtLakala~~~~~~---~i~i~-g~~l~~~--~~~~~~~-----------------~i~~vf~~a~~~~  103 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANESGLN---FISVK-GPELLNM--YVGESER-----------------AVRQVFQRAKNSA  103 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHHTTCE---EEEEE-TTTTCSS--TTHHHHH-----------------HHHHHHHHHHHTC
T ss_pred             EEEECCCCCcHHHHHHHHHHHcCCC---EEEEE-cHHHHhh--hhhHHHH-----------------HHHHHHHHHHhcC
Confidence            8999999999999999999875431   22222 1111110  0000000                 11111111 1345


Q ss_pred             ceEEEecCCCChh-------------hhhhhhcCCCC--CCCCeEEEEEcCchhhhhhc-----CcceEEEecCCChHHH
Q 005191          287 KVFIVLDDVNKYG-------------QLEYFDGGLDR--FGPGSRIIVTTRDKTILERY-----GTHRIYEVEGLNCNEA  346 (709)
Q Consensus       287 r~LLVLDdv~~~~-------------~~~~l~~~l~~--~~~gsrIIvTTR~~~v~~~~-----~~~~~~~L~~L~~~ea  346 (709)
                      +.++++|+++...             ....+...+..  .....-++.+|..+......     ..+..+.++..+.++-
T Consensus       104 p~i~~~Deid~~~~~r~~~~~~~~~~~~~~~l~~Lsgg~~~~~~i~ia~tn~p~~LD~al~r~gRfd~~i~~~~P~~~~r  183 (274)
T 2x8a_A          104 PCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADR  183 (274)
T ss_dssp             SEEEEEETCTTTCC---------CTTHHHHHHHHHHTCCSTTCEEEEEEESCGGGSCHHHHSTTSSCEEEECCSCCHHHH
T ss_pred             CCeEeeehhhhhhcccCCCcchHHHHHHHHHHHhhhcccccCCEEEEeecCChhhCCHhhcCcccCCeEEEeCCcCHHHH
Confidence            7899999986421             11122222211  12234556677666543321     3457788888898888


Q ss_pred             HHHhhhcc
Q 005191          347 LRLFCSCA  354 (709)
Q Consensus       347 ~~Lf~~~a  354 (709)
                      .+++....
T Consensus       184 ~~il~~~~  191 (274)
T 2x8a_A          184 LAILKTIT  191 (274)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHH
Confidence            88887655

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.50  E-value=0.013  Score=66.00  Aligned_cols=48  Identities=25%  Similarity=0.347  Sum_probs=34.0

Q ss_pred             ccccchhhhHHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          184 LIGLESHVEQVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .+|-+.....+.+.+..    .......+.|+|++|+||||||+.++.....
T Consensus        83 i~G~~~vk~~i~~~~~l~~~~~~~~g~~vll~Gp~GtGKTtlar~ia~~l~~  134 (543)
T 3m6a_A           83 HHGLEKVKERILEYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGR  134 (543)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHSSSCCSCEEEEESSSSSSHHHHHHHHHHHHTC
T ss_pred             hccHHHHHHHHHHHHHHHHhcccCCCCEEEEECCCCCCHHHHHHHHHHhcCC
Confidence            67776666655443321    1124568999999999999999999987643

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.46  E-value=0.0029  Score=74.39  Aligned_cols=48  Identities=17%  Similarity=0.212  Sum_probs=37.8

Q ss_pred             CCccccchhhhHHHhhhhccC-------CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          182 DGLIGLESHVEQVRSLLAIGL-------PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..++|.+..++.+...+....       .....+.++|++|+|||++|+.+++..
T Consensus       458 ~~v~g~~~~~~~l~~~i~~~~~g~~~~~~p~~~~ll~G~~GtGKT~la~~la~~l  512 (758)
T 1r6b_X          458 MLVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL  512 (758)
T ss_dssp             TTSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             hhccCHHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCcHHHHHHHHHHHh
Confidence            468899998888877665311       123478999999999999999999876

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=96.37  E-value=0.0095  Score=61.90  Aligned_cols=51  Identities=14%  Similarity=0.197  Sum_probs=34.2

Q ss_pred             hhhHHHhhhhccCC-CceEEEEEccCCCchhHHHHHHHHHhh-hcccceEEEe
Q 005191          190 HVEQVRSLLAIGLP-DVRLVGIWGMGGIGKTTIAGVVFNQFS-QKFEGKYFMA  240 (709)
Q Consensus       190 el~~L~~~L~~~~~-~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~f~~~~~v~  240 (709)
                      .++.+.+++....+ ....+.|+|++|+|||+||..+++... .....+.++.
T Consensus       136 ~~~~~~~~i~~~~~~~~~~lll~G~~GtGKT~La~aia~~~~~~~g~~v~~~~  188 (308)
T 2qgz_A          136 AFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH  188 (308)
T ss_dssp             HHHHHHHHHHHCSCSSCCEEEEECSTTSSHHHHHHHHHHHHHHHSCCCEEEEE
T ss_pred             HHHHHHHHHHhccccCCceEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEE
Confidence            33444455553222 246788999999999999999999876 5433344443

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=96.04  E-value=0.015  Score=56.50  Aligned_cols=44  Identities=25%  Similarity=0.165  Sum_probs=29.9

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      |...+..+-....++.|.|++|+|||||+..++.   ..-..++|+.
T Consensus         9 LD~~l~Ggi~~G~~~~i~G~~GsGKTtl~~~l~~---~~~~~v~~i~   52 (220)
T 2cvh_A            9 LDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL---LSGKKVAYVD   52 (220)
T ss_dssp             HHHHTTSSBCTTSEEEEECSTTSSHHHHHHHHHH---HHCSEEEEEE
T ss_pred             HHHhhcCCCcCCEEEEEECCCCCCHHHHHHHHHH---HcCCcEEEEE
Confidence            3344432333457999999999999999999988   2223455554

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.02  E-value=0.0091  Score=69.72  Aligned_cols=150  Identities=17%  Similarity=0.237  Sum_probs=76.2

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ..+.|.++..++|.+.+..           +....+-+.++|++|.|||.||++++......     |+. +   +    
T Consensus       477 ~diggl~~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~-----f~~-v---~----  543 (806)
T 3cf2_A          477 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN-----FIS-I---K----  543 (806)
T ss_dssp             TTCCSCHHHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCE-----EEE-C---C----
T ss_pred             HHhCCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEecCCCCCchHHHHHHHHHhCCc-----eEE-e---c----
Confidence            4566777777777665532           11224668899999999999999999986433     222 1   0    


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCChhHHH-HHHHccCceEEEecCCCChh----------------hhhhhhcCCCCC--
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPKIPQYI-RDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDRF--  311 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~~~~~l-~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~~--  311 (709)
                       ..    .++....++     .+.....+ ...-...+++|+||+++...                ....|+..+...  
T Consensus       544 -~~----~l~s~~vGe-----se~~vr~lF~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~  613 (806)
T 3cf2_A          544 -GP----ELLTMWFGE-----SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  613 (806)
T ss_dssp             -HH----HHHTTTCSS-----CHHHHHHHHHHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCS
T ss_pred             -cc----hhhccccch-----HHHHHHHHHHHHHHcCCceeechhhhHHhhccCCCCCCCchHHHHHHHHHHHHHhCCCC
Confidence             01    111111110     11122222 22334578999999995310                123333222211  


Q ss_pred             CCCeEEEEEcCchhhh-----hhcCcceEEEecCCChHHHHHHhhhcc
Q 005191          312 GPGSRIIVTTRDKTIL-----ERYGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~-----~~~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ..+.-||-||..+..+     ....-+..+.++..+.++-.++|..+.
T Consensus       614 ~~~V~vi~aTN~p~~lD~AllRpgRfd~~i~v~lPd~~~R~~il~~~l  661 (806)
T 3cf2_A          614 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANL  661 (806)
T ss_dssp             SSSEEEECC-CCSSSSCHHHHSTTTSCCEEEC-----CHHHHTTTTTS
T ss_pred             CCCEEEEEeCCCchhCCHhHcCCCcceEEEEECCcCHHHHHHHHHHHh
Confidence            2233444455444221     111245677887777777778887665

>1g5t_A COB(I)alamin adenosyltransferase; P-loop protein, cobalamin biosynthesis, RECA fold; HET: ATP; 1.80A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1g5r_A* 1g64_A*

Probab=95.84  E-value=0.019  Score=55.10  Aligned_cols=117  Identities=19%  Similarity=0.112  Sum_probs=58.8

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHh--cCCCCCCCCC------C---
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKL--LGENFDIGTP------K---  274 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l--~~~~~~~~~~------~---  274 (709)
                      ..|.|++..|.||||.|...+-+...+--.+.++.-+... .. .+...+...+.-.+  .+........      .   
T Consensus        29 g~i~v~tG~GkGKTTaA~GlalRA~g~G~rV~~vQF~Kg~-~~-~gE~~~l~~L~v~~~~~g~gf~~~~~~~~~~~~~a~  106 (196)
T 1g5t_A           29 GIIIVFTGNGKGKTTAAFGTAARAVGHGKNVGVVQFIKGT-WP-NGERNLLEPHGVEFQVMATGFTWETQNREADTAACM  106 (196)
T ss_dssp             CCEEEEESSSSCHHHHHHHHHHHHHHTTCCEEEEESSCCS-SC-CHHHHHHGGGTCEEEECCTTCCCCGGGHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCCC-CC-ccHHHHHHhCCcEEEEcccccccCCCCcHHHHHHHH
Confidence            4566666677999999999988866654444444322211 11 22233333331000  0010000000      0   


Q ss_pred             -hhHHHHHHHccC-ceEEEecCCCC-----hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          275 -IPQYIRDRLQRM-KVFIVLDDVNK-----YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       275 -~~~~l~~~L~~k-r~LLVLDdv~~-----~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                       .....++.+.+. -=|||||++..     .-..+.+...+........||+|+|+.
T Consensus       107 ~~l~~a~~~l~~~~yDlvILDEi~~al~~g~l~~~ev~~~l~~Rp~~~~vIlTGr~a  163 (196)
T 1g5t_A          107 AVWQHGKRMLADPLLDMVVLDELTYMVAYDYLPLEEVISALNARPGHQTVIITGRGC  163 (196)
T ss_dssp             HHHHHHHHHTTCTTCSEEEEETHHHHHHTTSSCHHHHHHHHHTSCTTCEEEEECSSC
T ss_pred             HHHHHHHHHHhcCCCCEEEEeCCCccccCCCCCHHHHHHHHHhCcCCCEEEEECCCC
Confidence             222334444444 45999999832     222233333333334677899999987

>1jr3_D DNA polymerase III, delta subunit; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*

Probab=95.75  E-value=0.33  Score=50.77  Aligned_cols=165  Identities=13%  Similarity=-0.034  Sum_probs=99.8

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh-cccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCC
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ-KFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIG  271 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~-~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~  271 (709)
                      ++.+.+. + .-.++..++|+.|.||++.+..+...+.. .|+....+. ...   . .++..+...+-..         
T Consensus         8 ~l~~~l~-~-~~~~~yl~~G~e~~~~~~~~~~l~~~~~~~~~~~~~~~~-~~~---~-~~~~~l~~~~~~~---------   71 (343)
T 1jr3_D            8 QLRAQLN-E-GLRAAYLLLGNDPLLLQESQDAVRQVAAAQGFEEHHTFS-IDP---N-TDWNAIFSLCQAM---------   71 (343)
T ss_dssp             THHHHHH-H-CCCSEEEEEESCHHHHHHHHHHHHHHHHHHTCCEEEEEE-CCT---T-CCHHHHHHHHHHH---------
T ss_pred             HHHHHHh-c-CCCcEEEEECCcHHHHHHHHHHHHHHHHhCCCCeeEEEE-ecC---C-CCHHHHHHHhcCc---------
Confidence            3444444 2 24678999999999999999999887543 343211111 111   1 3333333222111         


Q ss_pred             CCChhHHHHHHHccCceEEEecCCCC---hhhhhhhhcCCCCCCCCeEEEEEcCc-------hhhhhhc-CcceEEEecC
Q 005191          272 TPKIPQYIRDRLQRMKVFIVLDDVNK---YGQLEYFDGGLDRFGPGSRIIVTTRD-------KTILERY-GTHRIYEVEG  340 (709)
Q Consensus       272 ~~~~~~~l~~~L~~kr~LLVLDdv~~---~~~~~~l~~~l~~~~~gsrIIvTTR~-------~~v~~~~-~~~~~~~L~~  340 (709)
                                -+.+++-++|+|+++.   .+..+.+...+....+++.+|++|..       ..+.... ....+++..+
T Consensus        72 ----------plf~~~kvvii~~~~~kl~~~~~~aLl~~le~p~~~~~~il~~~~~~~~~~~~k~~~~i~sr~~~~~~~~  141 (343)
T 1jr3_D           72 ----------SLFASRQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQVTCQT  141 (343)
T ss_dssp             ----------HHCCSCEEEEEECCSSCCCTTHHHHHHHHHTTCBTTEEEEEEESCCCTTTTTSHHHHHHTTTCEEEEECC
T ss_pred             ----------CCccCCeEEEEECCCCCCChHHHHHHHHHHhcCCCCeEEEEEcCCCChhhHhhHHHHHHHhCceEEEeeC
Confidence                      1234566888999864   34556666555544567777766643       1233332 2346889999


Q ss_pred             CChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          341 LNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       341 L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ++.++..+.+.+.+-...  -.-..+.+..+++.++|.+..+...
T Consensus       142 l~~~~l~~~l~~~~~~~g--~~i~~~a~~~l~~~~~gdl~~~~~e  184 (343)
T 1jr3_D          142 PEQAQLPRWVAARAKQLN--LELDDAANQVLCYCYEGNLLALAQA  184 (343)
T ss_dssp             CCTTHHHHHHHHHHHHTT--CEECHHHHHHHHHSSTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHcC--CCCCHHHHHHHHHHhchHHHHHHHH
Confidence            999999988877663221  1223456888999999998877654

>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=95.64  E-value=0.011  Score=70.44  Aligned_cols=50  Identities=16%  Similarity=0.254  Sum_probs=38.8

Q ss_pred             CCccccchhhhHHHhhhhccC-------CCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          182 DGLIGLESHVEQVRSLLAIGL-------PDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~-------~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..++|.+..++.+...+....       .....+.|+|++|+|||++|+.+++....
T Consensus       558 ~~viG~~~a~~~l~~~i~~~~~g~~~~~~p~~~vLl~Gp~GtGKT~lA~~la~~~~~  614 (854)
T 1qvr_A          558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFD  614 (854)
T ss_dssp             HHSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHS
T ss_pred             cccCCcHHHHHHHHHHHHHHhcccCCCCCCceEEEEECCCCCCHHHHHHHHHHHhcC
Confidence            357999998888887775321       11358899999999999999999987643

>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=95.57  E-value=0.014  Score=60.62  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..+++.|+|++|+|||+||.+++..
T Consensus       122 ~gsviLI~GpPGsGKTtLAlqlA~~  146 (331)
T 2vhj_A          122 ASGMVIVTGKGNSGKTPLVHALGEA  146 (331)
T ss_dssp             ESEEEEEECSCSSSHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            3467889999999999999999886

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=95.48  E-value=0.032  Score=59.01  Aligned_cols=49  Identities=24%  Similarity=0.237  Sum_probs=35.5

Q ss_pred             hHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..|...|. .+-+..+++.|.|++|+||||||.+++......-..++|+.
T Consensus        47 ~~LD~~Lg~GGi~~G~i~~I~GppGsGKSTLal~la~~~~~~gg~VlyId   96 (356)
T 3hr8_A           47 LAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQKMGGVAAFID   96 (356)
T ss_dssp             HHHHHHTSSSSEETTEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhccCCccCCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEe
Confidence            34555554 33345689999999999999999999987665434456665

>2r44_A Uncharacterized protein; putative ATPase, structural genomics, joint center for struc genomics, JCSG; HET: MSE PG4; 2.00A {Cytophaga hutchinsonii atcc 33406}

Probab=95.41  E-value=0.0063  Score=63.75  Aligned_cols=47  Identities=13%  Similarity=0.203  Sum_probs=38.8

Q ss_pred             CCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++|++..++.+...+..+    .-+.|+|++|+|||+||+.+++....
T Consensus        26 ~~~i~g~~~~~~~l~~~l~~~----~~vll~G~pGtGKT~la~~la~~~~~   72 (331)
T 2r44_A           26 GKVVVGQKYMINRLLIGICTG----GHILLEGVPGLAKTLSVNTLAKTMDL   72 (331)
T ss_dssp             TTTCCSCHHHHHHHHHHHHHT----CCEEEESCCCHHHHHHHHHHHHHTTC
T ss_pred             ccceeCcHHHHHHHHHHHHcC----CeEEEECCCCCcHHHHHHHHHHHhCC
Confidence            356999999998888877643    36889999999999999999987643

>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=95.38  E-value=0.0076  Score=56.73  Aligned_cols=25  Identities=20%  Similarity=0.304  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|.|.|++|+||||+|+.+++++.
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~l~   28 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhcC
Confidence            5789999999999999999998754

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.35  E-value=0.021  Score=55.11  Aligned_cols=45  Identities=20%  Similarity=0.271  Sum_probs=33.2

Q ss_pred             cchhhhHHHhhhhcc-CCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          187 LESHVEQVRSLLAIG-LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       187 R~~el~~L~~~L~~~-~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      |++.++.+.+.+... .....+++|.|++|+|||||++.+...+..
T Consensus         3 ~~~~~~~l~~~~~~~~~~~~~~i~i~G~~GsGKstl~~~l~~~~~~   48 (201)
T 1rz3_A            3 LRDRIDFLCKTILAIKTAGRLVLGIDGLSRSGKTTLANQLSQTLRE   48 (201)
T ss_dssp             HHHHHHHHHHHHHTSCCSSSEEEEEEECTTSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccCCCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            445566666655532 235689999999999999999999886643

>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=95.33  E-value=0.0047  Score=65.51  Aligned_cols=111  Identities=13%  Similarity=0.108  Sum_probs=66.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEE-EeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYF-MANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~-v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ..+++|.|+.|.|||||.+.+...+.......++ +....+....  ..       ...+...............+...|
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~~~~~~~i~t~ed~~e~~~~--~~-------~~~v~q~~~~~~~~~~~~~La~aL  193 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLNNTKYHHILTIEDPIEFVHE--SK-------KCLVNQREVHRDTLGFSEALRSAL  193 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCC--CS-------SSEEEEEEBTTTBSCHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcccCCCCcEEEEccCcHHhhhh--cc-------ccceeeeeeccccCCHHHHHHHHh
Confidence            3599999999999999999998876544333332 2211110000  00       000000001111122566888899


Q ss_pred             ccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhhh
Q 005191          284 QRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTIL  327 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v~  327 (709)
                      ...+=+|++|...+.+.++.+....   ..|..||+||......
T Consensus       194 ~~~PdvillDEp~d~e~~~~~~~~~---~~G~~vl~t~H~~~~~  234 (356)
T 3jvv_A          194 REDPDIILVGEMRDLETIRLALTAA---ETGHLVFGTLHTTSAA  234 (356)
T ss_dssp             TSCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEESCSSHH
T ss_pred             hhCcCEEecCCCCCHHHHHHHHHHH---hcCCEEEEEEccChHH
Confidence            9999999999998777666544432   2466788888876544

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=95.31  E-value=0.019  Score=58.02  Aligned_cols=110  Identities=14%  Similarity=0.103  Sum_probs=63.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeec--ccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVR--EESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRD  281 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~--~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~  281 (709)
                      ...+++|+|+.|.|||||.+.+...+...+...+++....  ...+....+          +...............+..
T Consensus        24 ~g~~v~i~Gp~GsGKSTll~~l~g~~~~~~~G~I~~~g~~i~~~~~~~~~~----------v~q~~~gl~~~~l~~~la~   93 (261)
T 2eyu_A           24 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIEDPIEYVFKHKKSI----------VNQREVGEDTKSFADALRA   93 (261)
T ss_dssp             SSEEEEEECSTTCSHHHHHHHHHHHHHHHCCCEEEEEESSCCSCCCCSSSE----------EEEEEBTTTBSCHHHHHHH
T ss_pred             CCCEEEEECCCCccHHHHHHHHHHhCCCCCCCEEEEcCCcceeecCCccee----------eeHHHhCCCHHHHHHHHHH
Confidence            4579999999999999999999886654434444443110  000000000          0000001111235666777


Q ss_pred             HHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchhh
Q 005191          282 RLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTI  326 (709)
Q Consensus       282 ~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~v  326 (709)
                      .+..++=+|++|...+.+....+....   ..|..|++||.+...
T Consensus        94 aL~~~p~illlDEp~D~~~~~~~l~~~---~~g~~vl~t~H~~~~  135 (261)
T 2eyu_A           94 ALREDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNTA  135 (261)
T ss_dssp             HHHHCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCSSH
T ss_pred             HHhhCCCEEEeCCCCCHHHHHHHHHHH---ccCCEEEEEeCcchH
Confidence            777788899999997655544433321   246678888876543

>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=95.23  E-value=0.012  Score=62.54  Aligned_cols=46  Identities=20%  Similarity=0.117  Sum_probs=34.2

Q ss_pred             ccccchhhhHHHhhhh-------------ccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          184 LIGLESHVEQVRSLLA-------------IGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~-------------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++|.+..++.+...+.             ........+.|+|++|+|||++|+.+++..
T Consensus        17 i~G~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~vll~GppGtGKT~la~~ia~~~   75 (363)
T 3hws_A           17 VIGQEQAKKVLAVAVYNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLL   75 (363)
T ss_dssp             CCSCHHHHHHHHHHHHHHHHHHHTTSCSSSCCCCCCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             ccCHHHHHHHHHHHHHHHHhhhccccccccccCCCCeEEEECCCCCCHHHHHHHHHHHc
Confidence            6777777777666652             111134678899999999999999999876

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=95.23  E-value=0.014  Score=56.61  Aligned_cols=38  Identities=29%  Similarity=0.351  Sum_probs=28.2

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +|.+.+....+...+++|.|++|.|||||++.+...+.
T Consensus        10 ~~~~~~~~~~~~g~~v~I~G~sGsGKSTl~~~l~~~~~   47 (208)
T 3c8u_A           10 GVLERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALS   47 (208)
T ss_dssp             HHHHHSCTTCCSCEEEEEECCTTSCTHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCCCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            34343332234568999999999999999999988765

>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=95.17  E-value=0.0097  Score=58.70  Aligned_cols=110  Identities=16%  Similarity=0.010  Sum_probs=57.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCC--CCCCCC-hhHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENF--DIGTPK-IPQYIR  280 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~--~~~~~~-~~~~l~  280 (709)
                      ...++.|+|..|+||||++..++++...+-..+.++...-+.. .       ..++++.++....  ...... +.+.+.
T Consensus        11 ~G~i~litG~mGsGKTT~ll~~~~r~~~~g~kVli~~~~~d~r-~-------~~~i~srlG~~~~~~~~~~~~~i~~~i~   82 (223)
T 2b8t_A           11 IGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTR-S-------IRNIQSRTGTSLPSVEVESAPEILNYIM   82 (223)
T ss_dssp             CCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEEECCCGG-G-------CSSCCCCCCCSSCCEEESSTHHHHHHHH
T ss_pred             CcEEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEEeccCch-H-------HHHHHHhcCCCccccccCCHHHHHHHHH
Confidence            3578999999999999999999998766544444443111100 0       0112222221111  111111 222333


Q ss_pred             HHHcc-CceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          281 DRLQR-MKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       281 ~~L~~-kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      +.+.+ +.-+||+|.+..  .++++.+.. +.  ..|..||+|.+..
T Consensus        83 ~~~~~~~~dvViIDEaQ~l~~~~ve~l~~-L~--~~gi~Vil~Gl~~  126 (223)
T 2b8t_A           83 SNSFNDETKVIGIDEVQFFDDRICEVANI-LA--ENGFVVIISGLDK  126 (223)
T ss_dssp             STTSCTTCCEEEECSGGGSCTHHHHHHHH-HH--HTTCEEEEECCSB
T ss_pred             HHhhCCCCCEEEEecCccCcHHHHHHHHH-HH--hCCCeEEEEeccc
Confidence            22222 345999999843  334443332 11  1267899999843

>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=95.04  E-value=0.012  Score=54.90  Aligned_cols=25  Identities=20%  Similarity=0.162  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|+|.|++|+||||+|+.++.++.
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~~l~   26 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSKELK   26 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988753

>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=94.95  E-value=0.084  Score=55.55  Aligned_cols=37  Identities=19%  Similarity=0.271  Sum_probs=28.3

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|-.+|..+-+...++.|.|++|+||||||.+++...
T Consensus       110 ~LD~~LgGGl~~G~i~~I~G~~GsGKTtla~~la~~~  146 (343)
T 1v5w_A          110 EFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTA  146 (343)
T ss_dssp             HHHHHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHT
T ss_pred             hHHHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444454333456899999999999999999998864

>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=94.89  E-value=0.014  Score=61.28  Aligned_cols=51  Identities=16%  Similarity=0.138  Sum_probs=35.8

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +.....++|.+...+.+...+...  ...-+.|+|++|+|||+||+.+++...
T Consensus        20 ~~~f~~i~G~~~~~~~l~~~~~~~--~~~~vLl~G~~GtGKT~la~~la~~~~   70 (350)
T 1g8p_A           20 VFPFSAIVGQEDMKLALLLTAVDP--GIGGVLVFGDRGTGKSTAVRALAALLP   70 (350)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHCG--GGCCEEEECCGGGCTTHHHHHHHHHSC
T ss_pred             CCCchhccChHHHHHHHHHHhhCC--CCceEEEECCCCccHHHHHHHHHHhCc
Confidence            344566999988655544333322  223488999999999999999998754

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=94.74  E-value=0.3  Score=52.91  Aligned_cols=29  Identities=24%  Similarity=0.393  Sum_probs=25.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+.+|.++|.+|+||||++..++..+..+
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~  127 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKR  127 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHC
Confidence            36899999999999999999999877654

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=94.73  E-value=0.18  Score=54.54  Aligned_cols=29  Identities=28%  Similarity=0.369  Sum_probs=25.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...++.++|++|+||||++..++..+..+
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~  124 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKR  124 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            36899999999999999999999877654

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=94.72  E-value=0.09  Score=54.94  Aligned_cols=30  Identities=23%  Similarity=0.288  Sum_probs=25.5

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +...+++|+|+.|+||||++..++..+...
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~  156 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNH  156 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            346899999999999999999998866543

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=94.67  E-value=0.016  Score=54.82  Aligned_cols=25  Identities=20%  Similarity=0.311  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.|.|.|++|+||||+|+.+++++
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La~~l   29 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLAKLT   29 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999999875

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=94.66  E-value=0.017  Score=55.55  Aligned_cols=26  Identities=23%  Similarity=0.280  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....|.|.|++|+||||+++.++..+
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~l   49 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARKL   49 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHc
Confidence            34689999999999999999999876

>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold, hydro; HET: ADP; 2.91A {Escherichia coli}

Probab=94.65  E-value=0.022  Score=63.08  Aligned_cols=45  Identities=24%  Similarity=0.201  Sum_probs=37.5

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..++|++..++.+...+..+    .-+.|+|++|+|||+||+.+++...
T Consensus        22 ~~ivGq~~~i~~l~~al~~~----~~VLL~GpPGtGKT~LAraLa~~l~   66 (500)
T 3nbx_X           22 KGLYERSHAIRLCLLAALSG----ESVFLLGPPGIAKSLIARRLKFAFQ   66 (500)
T ss_dssp             TTCSSCHHHHHHHHHHHHHT----CEEEEECCSSSSHHHHHHHGGGGBS
T ss_pred             hhhHHHHHHHHHHHHHHhcC----CeeEeecCchHHHHHHHHHHHHHHh
Confidence            36899999998888777633    4688999999999999999988653

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=94.62  E-value=0.082  Score=55.07  Aligned_cols=29  Identities=24%  Similarity=0.390  Sum_probs=25.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+++|+|++|+||||++..++..+...
T Consensus       104 ~~~vI~ivG~~G~GKTT~~~~LA~~l~~~  132 (320)
T 1zu4_A          104 RLNIFMLVGVNGTGKTTSLAKMANYYAEL  132 (320)
T ss_dssp             SCEEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            46899999999999999999999877654

>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=94.62  E-value=0.012  Score=56.19  Aligned_cols=28  Identities=32%  Similarity=0.593  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      |.|.|+|++|+|||||++.+..+....|
T Consensus         2 RpIVi~GPSG~GK~Tl~~~L~~~~~~~~   29 (186)
T 1ex7_A            2 RPIVISGPSGTGKSTLLKKLFAEYPDSF   29 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhCCCCe
Confidence            5688999999999999999887754433

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=94.56  E-value=0.032  Score=52.83  Aligned_cols=26  Identities=23%  Similarity=0.403  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..|.|.|++|+||||+|+.+++++..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~l~~   27 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEILDN   27 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            47899999999999999999998753

>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=94.55  E-value=0.018  Score=53.51  Aligned_cols=20  Identities=35%  Similarity=0.582  Sum_probs=18.6

Q ss_pred             eEEEEEccCCCchhHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVV  225 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v  225 (709)
                      .+|+|.|++|+||||+|+.+
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999998

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=94.55  E-value=0.019  Score=53.81  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=20.5

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .+|.|.|++|+||||+|+.+.+
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999987

>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=94.53  E-value=0.07  Score=55.68  Aligned_cols=38  Identities=24%  Similarity=0.314  Sum_probs=27.9

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .|..+|..+-+...++.|+|.+|+|||+||.+++....
T Consensus        95 ~LD~~L~GGl~~G~i~~i~G~~GsGKT~la~~la~~~~  132 (324)
T 2z43_A           95 ALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQ  132 (324)
T ss_dssp             HHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             hHHHhcCCCCCCCcEEEEECCCCCCHhHHHHHHHHHHh
Confidence            33344433323457999999999999999999988653

>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=94.51  E-value=0.036  Score=53.34  Aligned_cols=27  Identities=22%  Similarity=0.319  Sum_probs=24.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+|+|.|++|.|||||++.++..+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~l~   50 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQMLY   50 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            468999999999999999999998775

>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=94.45  E-value=0.032  Score=57.29  Aligned_cols=29  Identities=17%  Similarity=0.196  Sum_probs=25.2

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....+|+|.|.+|+||||||+.+...+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~~l~~   57 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYNHLME   57 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            45789999999999999999999887654

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=94.44  E-value=0.078  Score=52.67  Aligned_cols=26  Identities=23%  Similarity=0.472  Sum_probs=22.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|+|+.|.|||||.+.++.-+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC
Confidence            45699999999999999999987643

>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=94.43  E-value=0.024  Score=53.87  Aligned_cols=26  Identities=23%  Similarity=0.286  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|.|.|++|+||||+|+.++..+
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~~l   29 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALATGL   29 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHc
Confidence            35789999999999999999998875

>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=94.43  E-value=0.027  Score=56.25  Aligned_cols=27  Identities=19%  Similarity=-0.002  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .....|+|.|++|+||||+|+.+.+++
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~~~   53 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKKSH   53 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            356789999999999999999998764

>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A {Bacillus phage SPP1}

Probab=94.40  E-value=0.072  Score=55.34  Aligned_cols=66  Identities=17%  Similarity=0.117  Sum_probs=41.9

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHH
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSK  262 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~  262 (709)
                      .-+..|.+++ .+-....++.|.|.+|+||||||..++.....+-..++|+. .    +  ....++...+...
T Consensus        53 TG~~~LD~~l-gGl~~G~l~li~G~pG~GKTtl~l~ia~~~a~~g~~vl~~s-l----E--~s~~~l~~R~~~~  118 (315)
T 3bh0_A           53 SGFTELDRMT-YGYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS-L----E--MGKKENIKRLIVT  118 (315)
T ss_dssp             CSCHHHHHHH-SSBCTTCEEEEECCTTSSHHHHHHHHHHHHHTTTCEEEEEE-S----S--SCHHHHHHHHHHH
T ss_pred             CChHHHHhhc-CCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEE-C----C--CCHHHHHHHHHHH
Confidence            3344454545 33345679999999999999999999887654434555554 1    1  3344555555544

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=94.30  E-value=0.14  Score=52.69  Aligned_cols=35  Identities=26%  Similarity=0.247  Sum_probs=27.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      ..+++++|.+|+||||++..++..+...-..+.++
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~  132 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLV  132 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            67999999999999999999998776543333333

>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=94.28  E-value=0.024  Score=53.81  Aligned_cols=25  Identities=32%  Similarity=0.355  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|++|+|||||++.++..
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3578999999999999999999875

>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=94.21  E-value=0.016  Score=61.93  Aligned_cols=111  Identities=15%  Similarity=0.116  Sum_probs=62.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ...+++|+|+.|.|||||+..+...+.......+.+... ..  . .....   . ..-+...............++..+
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~~~~~~g~I~~~e~-~~--e-~~~~~---~-~~~v~Q~~~g~~~~~~~~~l~~~L  206 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYINQTKSYHIITIED-PI--E-YVFKH---K-KSIVNQREVGEDTKSFADALRAAL  206 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHHHHHSCCEEEEEES-SC--C-SCCCC---S-SSEEEEEEBTTTBSCSHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhcCcCCCcEEEEecc-cH--h-hhhcc---C-ceEEEeeecCCCHHHHHHHHHHHh
Confidence            457899999999999999999988765432344433210 00  0 00000   0 000000000111122566788888


Q ss_pred             ccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          284 QRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       284 ~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      ...+-+|++|.+.+.+.+.......   ..|..|+.|+....
T Consensus       207 ~~~pd~illdE~~d~e~~~~~l~~~---~~g~~vi~t~H~~~  245 (372)
T 2ewv_A          207 REDPDVIFVGEMRDLETVETALRAA---ETGHLVFGTLHTNT  245 (372)
T ss_dssp             TSCCSEEEESCCCSHHHHHHHHHHH---TTTCEEEECCCCCS
T ss_pred             hhCcCEEEECCCCCHHHHHHHHHHH---hcCCEEEEEECcch
Confidence            8888899999997766554433322   34566777776554

>3hyn_A Putative signal transduction protein; DUF1863 family protein, nucleotide-binding protein, structur genomics; HET: MSE; 1.20A {Eubacterium rectale atcc 33656}

Probab=94.20  E-value=0.21  Score=46.60  Aligned_cols=105  Identities=21%  Similarity=0.232  Sum_probs=71.2

Q ss_pred             cceEEecC--------------CcccccCchHHHHHHHHHhCCCceEEcC-CCC-------C-CCcccHHHHHHHHhccc
Q 005191            5 KYDVFLSF--------------RGEDTRDNFLSHLVVALQEKKIKTFIDE-ELT-------R-GDQISPALVKAIEESMI   61 (709)
Q Consensus         5 ~ydvFiS~--------------~~~D~~~~f~~~L~~~L~~~g~~~~~d~-~~~-------~-g~~~~~~i~~ai~~S~~   61 (709)
                      +=-+||+|              ..+|  -.....|...-....+--|.|. +..       . -+.|-..+.+.|..|+.
T Consensus         5 rn~~YvaF~~~~~~~~~~~~~~a~~D--i~yy~lL~aWk~n~n~F~F~D~Hd~~y~vrDsS~~e~tIKrrLReRI~~Sk~   82 (189)
T 3hyn_A            5 QNANYSAFYVSEPFSESNLGANSTHD--FVYYNMLRMWKGEDNSFPFNDAHDKTYNVRDGSDWEKTLKPRLHTRLDNSKN   82 (189)
T ss_dssp             CCEEEEECCCCSSCCTTSTTGGGSTT--HHHHHHHHHHHHHCTTSSCCBTTTTCCCTTSCCCTTTTHHHHHHHHHHTEEE
T ss_pred             ccCcEEEEeccCcccccccCCCccch--HHHHHHHHHHHcCCCceeecchhhccccccccccHHHHHHHHHHHHHHhcCc
Confidence            34578998              3445  4456666666666666556675 431       2 34688899999999999


Q ss_pred             eeEEeccCcccchhhHHHHHHHHHhhhhCCceeEeEEeecC-CCcccccCCchh
Q 005191           62 SVIIFSKNYASSKWCLDELVKILKCHKKNIQLVIPIFYNVD-PSVVRNQTGSFK  114 (709)
Q Consensus        62 ~ivvlS~~y~~S~wc~~El~~~~~~~~~~~~~vlPvf~~v~-p~~vr~~~g~~~  114 (709)
                      .|+++|++...|.|-.+|+..++.   ..+.+||-|..+-+ .+++.+..|++.
T Consensus        83 vIllIs~~T~~s~~v~wEIe~Ai~---~~~~PII~Vy~~~~~~~~i~~~~g~~~  133 (189)
T 3hyn_A           83 IILFLSSITANSRALREEMNYGIG---TKGLPVIVIYPDYDKKSDIVDSNGNFK  133 (189)
T ss_dssp             EEEECCTTCCCCHHHHHHHHHHTT---TTCCCEEEEETTCCSGGGTBCTTSCBC
T ss_pred             EEEEEecCccccchhHHHHHHHHH---hcCCcEEEEECCccccchhhhccccch
Confidence            999999999999999999987762   34456777764422 234444445433

>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus aquaticus}

Probab=94.18  E-value=0.28  Score=53.43  Aligned_cols=68  Identities=18%  Similarity=0.093  Sum_probs=42.7

Q ss_pred             chhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEeeecccccccCCHHHHHHHHHHHh
Q 005191          188 ESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVREESEKCGGLVHLRNQVLSKL  263 (709)
Q Consensus       188 ~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l  263 (709)
                      ..-...|..++ .+-....++.|.|.+|+||||||..++....... ..++|+. .    +  ....++...++...
T Consensus       184 ~tG~~~LD~~l-gGl~~G~l~ii~G~pg~GKT~lal~ia~~~a~~~g~~vl~~s-l----E--~~~~~l~~R~~~~~  252 (444)
T 2q6t_A          184 RTGFKELDQLI-GTLGPGSLNIIAARPAMGKTAFALTIAQNAALKEGVGVGIYS-L----E--MPAAQLTLRMMCSE  252 (444)
T ss_dssp             CCSCHHHHHHH-CCCCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEE-S----S--SCHHHHHHHHHHHH
T ss_pred             cCCCHhhhhhc-CCcCCCcEEEEEeCCCCCHHHHHHHHHHHHHHhCCCeEEEEE-C----C--CCHHHHHHHHHHHH
Confidence            33344455555 3334567999999999999999999998766432 3455554 1    1  33445666655443

>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=94.18  E-value=0.025  Score=53.60  Aligned_cols=26  Identities=23%  Similarity=0.516  Sum_probs=23.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..|.|.|++|+||||+++.++.++..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~~l~~   29 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMDNLRK   29 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            57999999999999999999987653

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=94.17  E-value=0.021  Score=53.35  Aligned_cols=25  Identities=32%  Similarity=0.373  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|+|+|++|+|||||++.++..+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~l~   29 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQLN   29 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHTT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhC
Confidence            4789999999999999999988753

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=94.12  E-value=0.2  Score=54.37  Aligned_cols=29  Identities=31%  Similarity=0.350  Sum_probs=25.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++|.++|.+|+||||++..++..+..+
T Consensus        99 ~~~vI~ivG~~GvGKTT~a~~LA~~l~~~  127 (433)
T 2xxa_A           99 PPAVVLMAGLQGAGKTTSVGKLGKFLREK  127 (433)
T ss_dssp             SSEEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            46899999999999999999999887765

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.09  E-value=0.039  Score=54.55  Aligned_cols=37  Identities=22%  Similarity=0.148  Sum_probs=28.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...++.|.|++|+||||||.+++......-..++|+.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~~~~~~~~~~~~v~~~~   58 (247)
T 2dr3_A           22 ERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVA   58 (247)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4578999999999999999998876654434555654

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=94.08  E-value=0.028  Score=53.22  Aligned_cols=26  Identities=15%  Similarity=0.413  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .++++|+|++|+|||||++.+.....
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~~   30 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKHP   30 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            46899999999999999999988653

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.08  E-value=0.027  Score=52.40  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...|+|.|++|+||||+|+.++.++.
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~~lg   32 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGLALK   32 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             cceEEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999999988753

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=94.08  E-value=0.051  Score=51.45  Aligned_cols=28  Identities=32%  Similarity=0.356  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+|.|.|++|+||||+++.++..+..
T Consensus        12 ~~~~i~l~G~~GsGKsT~~~~L~~~l~~   39 (186)
T 2yvu_A           12 KGIVVWLTGLPGSGKTTIATRLADLLQK   39 (186)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            3578999999999999999999988754

>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=94.06  E-value=0.022  Score=53.65  Aligned_cols=25  Identities=24%  Similarity=0.324  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.|.|.|++|+||||+++.+++.+
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~~~   35 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELASKS   35 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHHHh
Confidence            4578899999999999999998875

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=94.05  E-value=0.021  Score=54.94  Aligned_cols=25  Identities=16%  Similarity=0.359  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|+|.|++|+||||+|+.++..+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~~l   42 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAEAC   42 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998875

>3ice_A Transcription termination factor RHO; transcription, ATPase, hexamer, helicase, RNA, RECA, OB fold ATP-binding, hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A

Probab=94.04  E-value=0.071  Score=56.52  Aligned_cols=40  Identities=10%  Similarity=-0.043  Sum_probs=29.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhccc-ceEEEeeec
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYFMANVR  243 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~v~~~~  243 (709)
                      ....++|+|++|+|||||++.+++.+..+.+ ..+.+..++
T Consensus       173 rGQr~~IvG~sG~GKTtLl~~Iar~i~~~~~~v~~I~~lIG  213 (422)
T 3ice_A          173 RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLID  213 (422)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHHHHHHHHCTTSEEEEEEES
T ss_pred             CCcEEEEecCCCCChhHHHHHHHHHHhhcCCCeeEEEEEec
Confidence            3568999999999999999999987765443 333334344

>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=93.92  E-value=0.04  Score=51.56  Aligned_cols=25  Identities=28%  Similarity=0.469  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+++|.|++|+||||+++.++..+
T Consensus         8 g~~i~l~G~~GsGKSTl~~~l~~~~   32 (175)
T 1knq_A            8 HHIYVLMGVSGSGKSAVASEVAHQL   32 (175)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHhh
Confidence            5789999999999999999998764

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=93.88  E-value=0.025  Score=53.23  Aligned_cols=26  Identities=27%  Similarity=0.360  Sum_probs=18.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+|.|.|++|+||||+|+.+++++.
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~~l~   30 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHERLP   30 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHHHST
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            45899999999999999999987653

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=93.87  E-value=0.034  Score=52.77  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|+|.|++|+||||+|+.+++.+
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~~~   27 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVEKY   27 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            3679999999999999999998764

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=93.86  E-value=0.033  Score=52.99  Aligned_cols=26  Identities=19%  Similarity=0.336  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|+|.|++|+||||+|+.+++.+
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La~~l   33 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIVQKY   33 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            34689999999999999999998865

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=93.86  E-value=0.053  Score=50.87  Aligned_cols=34  Identities=15%  Similarity=0.109  Sum_probs=26.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc-ccceE
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKY  237 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~  237 (709)
                      ..++++|.|.+|+|||||+..+...+..+ +...+
T Consensus         3 ~~~~i~i~G~sGsGKTTl~~~L~~~l~~~g~~v~~   37 (169)
T 1xjc_A            3 AMNVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGT   37 (169)
T ss_dssp             -CCEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhhHhcCCeeeE
Confidence            35789999999999999999999887654 44333

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=93.85  E-value=0.041  Score=53.20  Aligned_cols=41  Identities=15%  Similarity=0.199  Sum_probs=30.8

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .-+..+..++.. -+..+.+.|+|++|+|||++|..+++.+.
T Consensus        43 ~f~~~l~~~~~~-iPkkn~ili~GPPGtGKTt~a~ala~~l~   83 (212)
T 1tue_A           43 TFLGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHFIQ   83 (212)
T ss_dssp             HHHHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc-CCcccEEEEECCCCCCHHHHHHHHHHHhC
Confidence            335566666653 23345799999999999999999998764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=93.84  E-value=0.037  Score=53.21  Aligned_cols=26  Identities=23%  Similarity=0.379  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|+|.|++|+||||+|+.+++.+
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~~~   39 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVKDY   39 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998764

>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1 b.49.1.1 c.37.1.11

Probab=93.84  E-value=0.087  Score=57.45  Aligned_cols=32  Identities=25%  Similarity=0.523  Sum_probs=25.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceE
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKY  237 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~  237 (709)
                      +.++|+|.+|+|||||+..+......++...+
T Consensus       152 q~~~i~G~sGvGKTtL~~~l~~~~~~~~~~i~  183 (473)
T 1sky_E          152 GKIGLFGGAGVGKTVLIQELIHNIAQEHGGIS  183 (473)
T ss_dssp             CEEEEECCSSSCHHHHHHHHHHHHHHHTCCCE
T ss_pred             CEEEEECCCCCCccHHHHHHHhhhhhccCcEE
Confidence            46889999999999999999987665554443

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=93.83  E-value=0.03  Score=53.61  Aligned_cols=24  Identities=29%  Similarity=0.558  Sum_probs=21.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .|+|.|++|+||||+++.+++.+.
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~l~   25 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKKLG   25 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHC
T ss_pred             EEEEECCCccCHHHHHHHHHHhcC
Confidence            589999999999999999998764

>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=93.83  E-value=0.15  Score=52.71  Aligned_cols=29  Identities=28%  Similarity=0.422  Sum_probs=25.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+++|+|++|+||||++..++..+...
T Consensus       103 ~~~vi~ivG~~GsGKTTl~~~LA~~l~~~  131 (306)
T 1vma_A          103 PPFVIMVVGVNGTGKTTSCGKLAKMFVDE  131 (306)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHHHHHhc
Confidence            46899999999999999999999877654

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=93.82  E-value=0.033  Score=53.58  Aligned_cols=26  Identities=42%  Similarity=0.475  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|++|+|||||++.++..+
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~~   53 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADET   53 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            35789999999999999999998875

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=93.81  E-value=0.033  Score=55.94  Aligned_cols=24  Identities=29%  Similarity=0.210  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .++.|.|++|+||||||+.++.+.
T Consensus         2 ~li~I~G~~GSGKSTla~~La~~~   25 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQET   25 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHhcC
Confidence            478999999999999999998865

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=93.78  E-value=0.053  Score=52.95  Aligned_cols=37  Identities=14%  Similarity=0.114  Sum_probs=27.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+++|.|++|+|||||+..++......-..+.|+.
T Consensus        22 ~G~~~~i~G~~GsGKTtl~~~l~~~~~~~~~~v~~~~   58 (235)
T 2w0m_A           22 QGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVT   58 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            3478999999999999999999976544333444443

>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=93.76  E-value=0.057  Score=52.18  Aligned_cols=28  Identities=18%  Similarity=0.232  Sum_probs=24.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...|+|.|++|+||||+|+.+++++...
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~~l~~~   36 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVEALCAA   36 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999887544

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=93.74  E-value=0.028  Score=54.35  Aligned_cols=27  Identities=26%  Similarity=0.498  Sum_probs=23.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+++|.|++|+|||||++.+.....
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~~~   37 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSEFP   37 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHHCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhCc
Confidence            357899999999999999999988763

>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=93.73  E-value=0.034  Score=53.94  Aligned_cols=27  Identities=30%  Similarity=0.412  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+++|+|++|+|||||++.+...+.
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~~   33 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDPE   33 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHSTT
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhCC
Confidence            457899999999999999999988654

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=93.72  E-value=0.032  Score=52.35  Aligned_cols=24  Identities=25%  Similarity=0.380  Sum_probs=21.5

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .|.|.|++|+||||+|+.++.++.
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~l~   29 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKDLD   29 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHHT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHcC
Confidence            588999999999999999988753

>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=93.70  E-value=0.037  Score=55.42  Aligned_cols=28  Identities=18%  Similarity=0.361  Sum_probs=23.9

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ....+|+|.|++|+||||+|+.+...+.
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~~lg   47 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQLLG   47 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3467899999999999999999988654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=93.69  E-value=0.04  Score=52.01  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|+|.|++|+||||+|+.+++++
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~~l   28 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQEL   28 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4579999999999999999998765

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=93.68  E-value=0.054  Score=55.52  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...++.|.|++|+||||+|+.+..++
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~~~   57 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFEET   57 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998764

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=93.67  E-value=0.04  Score=53.12  Aligned_cols=28  Identities=25%  Similarity=0.333  Sum_probs=24.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...|+|.|++|+||||+|+.+++.+...
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~~l~~~   31 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKDWIELK   31 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHTTT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHhhc
Confidence            3689999999999999999999876543

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=93.66  E-value=0.035  Score=52.98  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|+|.|++|+||||+|+.+++++
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~~l   36 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVEKY   36 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3689999999999999999998875

>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=93.63  E-value=0.038  Score=52.40  Aligned_cols=25  Identities=28%  Similarity=0.310  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|+|++|+||||+++.++..
T Consensus         9 ~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            9 KGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999886

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=93.60  E-value=0.047  Score=57.37  Aligned_cols=30  Identities=30%  Similarity=0.317  Sum_probs=25.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ....+.|.|++|+||||+++.++..+...|
T Consensus        23 ~~~~i~l~G~~G~GKTTl~~~la~~l~~~f   52 (359)
T 2ga8_A           23 YRVCVILVGSPGSGKSTIAEELCQIINEKY   52 (359)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHHHhCCCe
Confidence            456789999999999999999998765444

>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A {Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A 2r6e_A 2vyf_A 2vye_A

Probab=93.59  E-value=0.37  Score=52.68  Aligned_cols=49  Identities=14%  Similarity=0.189  Sum_probs=33.5

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhccc-ceEEEe
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYFMA  240 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~v~  240 (709)
                      ...|.+.+ .+-....++.|.|.+|+||||||..++..+..... .++|+.
T Consensus       190 ~~~LD~~~-gGl~~G~liiI~G~pG~GKTtl~l~ia~~~~~~~g~~Vl~~s  239 (454)
T 2r6a_A          190 FTELDRMT-SGFQRSDLIIVAARPSVGKTAFALNIAQNVATKTNENVAIFS  239 (454)
T ss_dssp             CHHHHHHH-SSBCTTCEEEEECCTTSCHHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             cHHHHhhc-CCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHhCCCcEEEEE
Confidence            33444444 23334579999999999999999999987765322 455554

>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=93.57  E-value=0.029  Score=53.05  Aligned_cols=24  Identities=25%  Similarity=0.335  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+|.|.|++|+||||+|+.++.++
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAKAL   26 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            358999999999999999998875

>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=93.55  E-value=0.05  Score=51.43  Aligned_cols=25  Identities=28%  Similarity=0.357  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|+|.|++|+||||+|+.+++.+
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~~l   30 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998865

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=93.55  E-value=0.19  Score=50.78  Aligned_cols=25  Identities=32%  Similarity=0.311  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+++|.|+.|.|||||.+.++--.
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC
Confidence            4689999999999999999987643

>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=93.51  E-value=0.033  Score=51.93  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..|.|.|++|+||||+|+.+++++
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~~l   26 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELARAL   26 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHh
Confidence            368999999999999999998875

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=93.49  E-value=0.04  Score=52.88  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=22.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+++|.|+.|+|||||++.++...
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            4689999999999999999998764

>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=93.48  E-value=0.041  Score=53.77  Aligned_cols=25  Identities=28%  Similarity=0.250  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|.|.|++|+||||+|+.+++.+
T Consensus         4 ~~~I~l~G~~GsGKsT~a~~La~~l   28 (220)
T 1aky_A            4 SIRMVLIGPPGAGKGTQAPNLQERF   28 (220)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4678999999999999999998875

>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=93.46  E-value=0.045  Score=52.40  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=23.0

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +...+|+|.|+.|+||||+|+.++..
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34679999999999999999999875

>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=93.40  E-value=0.047  Score=52.46  Aligned_cols=25  Identities=28%  Similarity=0.191  Sum_probs=22.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|+|.|++|+||||+|+.++..+
T Consensus        20 ~~~I~l~G~~GsGKST~a~~La~~l   44 (201)
T 2cdn_A           20 HMRVLLLGPPGAGKGTQAVKLAEKL   44 (201)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998875

>2zts_A Putative uncharacterized protein PH0186; KAIC like protein, ATP-binding, nucleotide-binding, ATP- binding protein; HET: ADP; 2.07A {Pyrococcus horikoshii}

Probab=93.39  E-value=0.073  Score=52.61  Aligned_cols=38  Identities=29%  Similarity=0.260  Sum_probs=27.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh-hcccceEEEe
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS-QKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~-~~f~~~~~v~  240 (709)
                      +...++.|.|.+|+|||+||.+++.... ..-..++|+.
T Consensus        28 ~~G~l~~i~G~pG~GKT~l~l~~~~~~~~~~~~~v~~~s   66 (251)
T 2zts_A           28 PEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVT   66 (251)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             CCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCceeec
Confidence            3457999999999999999999876543 3333444544

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=93.38  E-value=0.046  Score=52.79  Aligned_cols=28  Identities=14%  Similarity=0.276  Sum_probs=24.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..+|+|.|++|+||||+++.+++.+...
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~~l~~~   37 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVEYLKNN   37 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999876543

>2r2a_A Uncharacterized protein; zonular occludens toxin, structural genomics, APC84050.2, PS protein structure initiative; HET: MSE; 1.82A {Neisseria meningitidis MC58}

Probab=93.34  E-value=0.24  Score=47.71  Aligned_cols=23  Identities=26%  Similarity=0.234  Sum_probs=19.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -+..|+|.+|.|||++|......
T Consensus         6 mi~l~tG~pGsGKT~~a~~~~~~   28 (199)
T 2r2a_A            6 EICLITGTPGSGKTLKMVSMMAN   28 (199)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            36789999999999999876544

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=93.34  E-value=0.044  Score=52.63  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+++|.|++|+||||+++.+....
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            4689999999999999999998765

>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=93.31  E-value=0.047  Score=55.05  Aligned_cols=26  Identities=27%  Similarity=0.463  Sum_probs=23.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+|.|.|++|+||||+|+.++..+.
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~~L~   29 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAKILS   29 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            46899999999999999999998754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=93.31  E-value=0.045  Score=51.91  Aligned_cols=25  Identities=36%  Similarity=0.557  Sum_probs=22.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +|+|.|++|+||||+|+.+.+++..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~~l~~   26 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYEYLKQ   26 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6899999999999999999987643

>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}

Probab=93.28  E-value=0.3  Score=53.47  Aligned_cols=29  Identities=28%  Similarity=0.339  Sum_probs=24.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhccc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFE  234 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  234 (709)
                      +.+.|.|.+|+|||+++..+...+.....
T Consensus        46 ~~~li~G~aGTGKT~ll~~~~~~l~~~~~   74 (459)
T 3upu_A           46 HHVTINGPAGTGATTLTKFIIEALISTGE   74 (459)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHHTTC
T ss_pred             CEEEEEeCCCCCHHHHHHHHHHHHHhcCC
Confidence            38999999999999999999987765433

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=93.27  E-value=0.047  Score=50.60  Aligned_cols=23  Identities=17%  Similarity=0.290  Sum_probs=21.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|+|.|++|+||||+|+.+.+.+
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~l   24 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSRSL   24 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHh
Confidence            58899999999999999998865

>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=93.27  E-value=0.044  Score=53.56  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+|+|+|++|+||||+++.++..+
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~~   29 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEAL   29 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            579999999999999999998764

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=93.26  E-value=0.073  Score=55.41  Aligned_cols=47  Identities=19%  Similarity=0.182  Sum_probs=33.5

Q ss_pred             ccccchhhhHHHhhhhcc--CCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          184 LIGLESHVEQVRSLLAIG--LPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~--~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ++|-...+..+...+...  ...+.+++|.|++|+|||||++.+...+.
T Consensus        69 ~~~~~~~l~~~~~~~l~~~~~~~p~iigI~GpsGSGKSTl~~~L~~ll~  117 (321)
T 3tqc_A           69 YVTARQTLQQATYQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLS  117 (321)
T ss_dssp             HHHHHHHHHHHHHHHHTCCCCCCCEEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             hhcchHHHHHHHHHHhccCCCCCCEEEEEECCCCCCHHHHHHHHHHHhc
Confidence            455555555555544432  34567999999999999999999877654

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=93.26  E-value=0.048  Score=52.76  Aligned_cols=27  Identities=30%  Similarity=0.364  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+++|.|+.|.|||||++.+...+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~~~   31 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALARTLG   31 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHHHG
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHhC
Confidence            457899999999999999999988654

>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=93.21  E-value=0.047  Score=52.60  Aligned_cols=27  Identities=19%  Similarity=0.425  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..++++|+|++|+|||||++.+.....
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~~   44 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQNP   44 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHCT
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhCC
Confidence            357899999999999999999987654

>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=93.21  E-value=0.047  Score=51.80  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .+++|.|++|.|||||++.++.
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            5789999999999999999976

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=93.21  E-value=0.11  Score=54.84  Aligned_cols=42  Identities=24%  Similarity=0.284  Sum_probs=30.7

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++...+....++..+|+|+|.+|+|||||+..++..+...
T Consensus        65 ~~~~~~~~~~~~~~~~~I~i~G~~G~GKSTl~~~L~~~l~~~  106 (355)
T 3p32_A           65 AQQLLLRLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIER  106 (355)
T ss_dssp             HHHHHHHHGGGCCCSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhHhhcCCceEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            334444444334567899999999999999999998876443

>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=93.20  E-value=0.18  Score=51.76  Aligned_cols=28  Identities=21%  Similarity=0.258  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+++|+|++|+||||++..++..+..
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~  131 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISML  131 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            4579999999999999999999987754

>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=93.20  E-value=0.072  Score=52.47  Aligned_cols=37  Identities=22%  Similarity=0.270  Sum_probs=27.3

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|-.+|..+-+...++.|.|++|+|||||+..++...
T Consensus        12 ~LD~~l~ggi~~G~~~~i~G~~GsGKTtl~~~l~~~~   48 (243)
T 1n0w_A           12 ELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTC   48 (243)
T ss_dssp             HHHHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             HHHHhhcCCCcCCeEEEEECCCCCcHHHHHHHHHHHH
Confidence            3444443332345799999999999999999998853

>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA replication, ATPase; HET: FLC; 2.50A {Helicobacter pylori}

Probab=93.19  E-value=0.22  Score=52.05  Aligned_cols=65  Identities=20%  Similarity=0.150  Sum_probs=41.1

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHh
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKL  263 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l  263 (709)
                      ...|.+++. +-....++.|.|.+|+||||||..++.....+-..+.|+. .     . ....++...++...
T Consensus        33 ~~~LD~~~g-Gl~~G~LiiIaG~pG~GKTt~al~ia~~~a~~g~~Vl~fS-l-----E-ms~~ql~~Rlls~~   97 (338)
T 4a1f_A           33 FVQLDNYTS-GFNKGSLVIIGARPSMGKTSLMMNMVLSALNDDRGVAVFS-L-----E-MSAEQLALRALSDL   97 (338)
T ss_dssp             CHHHHHHHC-SBCTTCEEEEEECTTSCHHHHHHHHHHHHHHTTCEEEEEE-S-----S-SCHHHHHHHHHHHH
T ss_pred             ChHHHHHhc-CCCCCcEEEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe-C-----C-CCHHHHHHHHHHHh
Confidence            344444442 2234579999999999999999999987655333444554 1     1 33455666665544

>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A {Bacillus phage SPP1}

Probab=93.07  E-value=0.24  Score=54.07  Aligned_cols=52  Identities=17%  Similarity=0.099  Sum_probs=34.9

Q ss_pred             chhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          188 ESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       188 ~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..-+..|.+++. +-....++.|.|.+|+||||||.+++.....+-..++|+.
T Consensus       181 ~TG~~~LD~~lg-Gl~~G~liiIaG~pG~GKTtlal~ia~~~a~~g~~vl~fS  232 (444)
T 3bgw_A          181 PSGFTELDRMTY-GYKRRNFVLIAARPSMGKTAFALKQAKNMSDNDDVVNLHS  232 (444)
T ss_dssp             CCSCHHHHHHHS-SBCSSCEEEEEECSSSSHHHHHHHHHHHHHHTTCEEEEEC
T ss_pred             CCCcHHHHhhcC-CCCCCcEEEEEeCCCCChHHHHHHHHHHHHHcCCEEEEEE
Confidence            333444444442 3334579999999999999999999987765523444543

>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=93.06  E-value=0.05  Score=52.49  Aligned_cols=26  Identities=31%  Similarity=0.464  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|+|+|++|.||||+|+.+...+
T Consensus        20 ~~~~i~i~G~~GsGKSTl~~~L~~~~   45 (207)
T 2qt1_A           20 KTFIIGISGVTNSGKTTLAKNLQKHL   45 (207)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999987753

>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=92.97  E-value=0.054  Score=52.88  Aligned_cols=26  Identities=23%  Similarity=0.300  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|++|+|||||++.++...
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            45899999999999999999998743

>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=92.97  E-value=0.062  Score=50.52  Aligned_cols=28  Identities=25%  Similarity=0.222  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+|+|.|+.|+||||+++.+...+..
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~l~~   31 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEYLVC   31 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3568999999999999999999887643

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=92.97  E-value=0.061  Score=52.66  Aligned_cols=27  Identities=22%  Similarity=0.377  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...++|.|.|++|+||||.|+.+++++
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~~~   53 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQKF   53 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            357899999999999999999998864

>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=92.95  E-value=0.079  Score=55.93  Aligned_cols=49  Identities=27%  Similarity=0.261  Sum_probs=35.0

Q ss_pred             hHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..|...|. .+-+..+++.|.|++|+||||||.+++......-..++|+.
T Consensus        47 ~~LD~~Lg~GGl~~G~iv~I~G~pGsGKTtLal~la~~~~~~g~~vlyi~   96 (349)
T 2zr9_A           47 ISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGIAAFID   96 (349)
T ss_dssp             HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            34444554 33345679999999999999999999987655444566665

>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=92.95  E-value=0.14  Score=53.64  Aligned_cols=106  Identities=16%  Similarity=0.120  Sum_probs=59.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      ...++|+|+.|.|||||++.+...+.. ....+.+....+....  ...       ..+.-- .. ........+...|.
T Consensus       171 g~~v~i~G~~GsGKTTll~~l~g~~~~-~~g~i~i~~~~e~~~~--~~~-------~~i~~~-~g-gg~~~r~~la~aL~  238 (330)
T 2pt7_A          171 GKNVIVCGGTGSGKTTYIKSIMEFIPK-EERIISIEDTEEIVFK--HHK-------NYTQLF-FG-GNITSADCLKSCLR  238 (330)
T ss_dssp             TCCEEEEESTTSCHHHHHHHGGGGSCT-TSCEEEEESSCCCCCS--SCS-------SEEEEE-CB-TTBCHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcC-CCcEEEECCeeccccc--cch-------hEEEEE-eC-CChhHHHHHHHHhh
Confidence            358999999999999999998876543 2445555432211100  000       000000 00 22236667788888


Q ss_pred             cCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          285 RMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      .++-+|++|...+.+.++.+. .+.  ..+..+|+||....
T Consensus       239 ~~p~ilildE~~~~e~~~~l~-~~~--~g~~tvi~t~H~~~  276 (330)
T 2pt7_A          239 MRPDRIILGELRSSEAYDFYN-VLC--SGHKGTLTTLHAGS  276 (330)
T ss_dssp             SCCSEEEECCCCSTHHHHHHH-HHH--TTCCCEEEEEECSS
T ss_pred             hCCCEEEEcCCChHHHHHHHH-HHh--cCCCEEEEEEcccH
Confidence            889999999997755444333 222  11223566665443

>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=92.93  E-value=0.08  Score=56.00  Aligned_cols=49  Identities=29%  Similarity=0.300  Sum_probs=35.0

Q ss_pred             hHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..|..+|. .+-+..+++.|.|.+|+||||||.+++......-..++|+.
T Consensus        49 ~~LD~~Lg~GGl~~G~ii~I~G~pGsGKTtLal~la~~~~~~g~~vlyid   98 (356)
T 1u94_A           49 LSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   98 (356)
T ss_dssp             HHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhccCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEe
Confidence            34444454 23334679999999999999999999987665544566766

>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=92.92  E-value=0.051  Score=52.24  Aligned_cols=21  Identities=33%  Similarity=0.476  Sum_probs=19.8

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .|+|.|+.|+||||+++.++.
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999987

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=92.91  E-value=0.054  Score=52.56  Aligned_cols=23  Identities=26%  Similarity=0.482  Sum_probs=20.4

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|+|.|++|+||||+|+.++.++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=92.82  E-value=0.053  Score=53.24  Aligned_cols=25  Identities=28%  Similarity=0.397  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|.|.|++|+||||+|+.+++++
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~~l   31 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITTHF   31 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHHHS
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHc
Confidence            4679999999999999999998864

>3fwy_A Light-independent protochlorophyllide reductase I ATP-binding protein; BCHL, electron donor, DPOR, Fe protein, nitrogenase; HET: ADP; 1.63A {Rhodobacter sphaeroides 2}

Probab=92.81  E-value=0.096  Score=54.40  Aligned_cols=36  Identities=25%  Similarity=0.411  Sum_probs=28.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      +.++|+|.|-|||||||.+..++.-+...-..+..+
T Consensus        47 ~aKVIAIaGKGGVGKTTtavNLA~aLA~~GkkVllI   82 (314)
T 3fwy_A           47 GAKVFAVYGKGGIGKSTTSSNLSAAFSILGKRVLQI   82 (314)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CceEEEEECCCccCHHHHHHHHHHHHHHCCCeEEEE
Confidence            579999999999999999999888776543333333

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=92.76  E-value=0.1  Score=50.65  Aligned_cols=42  Identities=24%  Similarity=0.260  Sum_probs=30.2

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +..+.+...+..  ...+.++|+|.+|+|||||+..+.......
T Consensus        16 ~~~~~~~~~~~~--~~~~~i~i~G~~g~GKTTl~~~l~~~~~~~   57 (221)
T 2wsm_A           16 RLAEKNREALRE--SGTVAVNIMGAIGSGKTLLIERTIERIGNE   57 (221)
T ss_dssp             HHHHHHHHHHHH--HTCEEEEEEECTTSCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHhhcc--cCceEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            334444444432  256899999999999999999998875444

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=92.74  E-value=0.05  Score=53.21  Aligned_cols=27  Identities=26%  Similarity=0.250  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ....|.|.|++|+||||+|+.+++++.
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~~l~   30 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKTKYQ   30 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            345789999999999999999988753

>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=92.73  E-value=0.039  Score=53.41  Aligned_cols=25  Identities=32%  Similarity=0.530  Sum_probs=22.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +|+|.|++|+||||+++.+...+..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~l~~   26 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGAFRA   26 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHHHHE
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            6899999999999999999987643

>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=92.72  E-value=0.058  Score=53.74  Aligned_cols=25  Identities=28%  Similarity=0.347  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+++|.|++|+|||||++.+++++
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~l   51 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNF   51 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999999764

>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=92.70  E-value=0.058  Score=52.39  Aligned_cols=23  Identities=22%  Similarity=0.416  Sum_probs=20.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|+|.|++|+||||+|+.+++++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVEKY   24 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            47899999999999999998764

>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=92.65  E-value=0.061  Score=51.54  Aligned_cols=25  Identities=24%  Similarity=0.238  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|+|.|++|+||||+++.+.+.+
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHH
Confidence            3689999999999999999998876

>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=92.57  E-value=0.059  Score=51.91  Aligned_cols=22  Identities=45%  Similarity=0.564  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .+|+|.|+.|+||||+++.++.
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999876

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=92.51  E-value=0.051  Score=52.30  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=21.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.++|+|++|+|||||++.+....
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~~   28 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQEH   28 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3678999999999999999998754

>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=92.51  E-value=0.067  Score=51.34  Aligned_cols=24  Identities=29%  Similarity=0.523  Sum_probs=22.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..+|+|+|+.|+||||+|+.+.+.
T Consensus        12 ~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           12 HMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            578999999999999999999876

>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=92.46  E-value=0.071  Score=50.46  Aligned_cols=24  Identities=29%  Similarity=0.454  Sum_probs=21.2

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .++|+|+.|+|||||++.++..+.
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            578999999999999999988653

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=92.46  E-value=0.12  Score=50.25  Aligned_cols=29  Identities=24%  Similarity=0.336  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ....|+|+|.+|+|||||+..+.......
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~   65 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDK   65 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccC
Confidence            46789999999999999999998865433

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=92.45  E-value=0.063  Score=53.82  Aligned_cols=27  Identities=30%  Similarity=0.375  Sum_probs=23.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...++.|.|++|+||||+|+.+...+.
T Consensus        31 ~~~~i~l~G~~GsGKSTla~~L~~~l~   57 (253)
T 2p5t_B           31 QPIAILLGGQSGAGKTTIHRIKQKEFQ   57 (253)
T ss_dssp             SCEEEEEESCGGGTTHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcC
Confidence            357899999999999999999988753

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=92.40  E-value=0.061  Score=50.39  Aligned_cols=23  Identities=39%  Similarity=0.569  Sum_probs=19.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~  226 (709)
                      ...+++|.|++|.|||||++.++
T Consensus         8 ~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            8 ELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHc
Confidence            35789999999999999999643

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=92.36  E-value=0.06  Score=52.50  Aligned_cols=24  Identities=21%  Similarity=0.300  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..|.|.|++|+||||+|+.+++++
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~~l   29 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKKEY   29 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            468899999999999999998875

>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=92.34  E-value=0.083  Score=51.22  Aligned_cols=27  Identities=22%  Similarity=0.204  Sum_probs=23.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+|.|.|++|+||||+++.+...+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~l~   50 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQLV   50 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHhc
Confidence            357899999999999999999988765

>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=92.28  E-value=0.14  Score=52.88  Aligned_cols=34  Identities=12%  Similarity=0.142  Sum_probs=27.4

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcc--cceEEEe
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKF--EGKYFMA  240 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~v~  240 (709)
                      ++.|.|++|+|||||+.+++......+  ..++|+.
T Consensus        30 iteI~G~pGsGKTtL~Lq~~~~~~~~g~g~~vlyId   65 (333)
T 3io5_A           30 LLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD   65 (333)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHHHHHCTTCEEEEEE
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEe
Confidence            789999999999999999988776553  3456665

>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D* 1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D* 2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...

Probab=92.27  E-value=0.47  Score=51.63  Aligned_cols=55  Identities=22%  Similarity=0.338  Sum_probs=36.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEeeecccccccCCHHHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVREESEKCGGLVHLRNQVLSK  262 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~~~~~~~~~~~~l~~l~~~ll~~  262 (709)
                      ..+.++|.|.+|+|||+|+..+++.+.... +..+| ..+++..   ....++.+.+...
T Consensus       152 kGQr~~Ifgg~G~GKT~L~~~i~~~~~~~~~~v~V~-~~iGER~---rEv~e~~~~~~~~  207 (482)
T 2ck3_D          152 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVF-AGVGERT---REGNDLYHEMIES  207 (482)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHTTTTCSSEEEE-EEESCCH---HHHHHHHHHHHHH
T ss_pred             cCCeeeeecCCCCChHHHHHHHHHhhHhhCCCEEEE-EECCCcc---hHHHHHHHHhhhc
Confidence            346889999999999999999999764433 33444 3344332   2345555555543

>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=92.26  E-value=0.085  Score=57.31  Aligned_cols=49  Identities=22%  Similarity=0.177  Sum_probs=33.3

Q ss_pred             CccccchhhhHHHhhhhc------------cCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          183 GLIGLESHVEQVRSLLAI------------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .++|-+...+.+...+..            .....+-+.++|++|+|||++|+.++..+..
T Consensus        16 ~IvGqe~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GppGtGKT~lar~lA~~l~~   76 (444)
T 1g41_A           16 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKLANA   76 (444)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHHHHSCTTTTTTCCCCCEEEECCTTSSHHHHHHHHHHHTTC
T ss_pred             HhCCHHHHHHHHHHHHHHHHhhhccccccccccCCceEEEEcCCCCCHHHHHHHHHHHcCC
Confidence            466666666655544421            0112456889999999999999999987643

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=92.23  E-value=0.078  Score=53.15  Aligned_cols=26  Identities=19%  Similarity=0.304  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|+|.|+.|+||||+++.++.++
T Consensus        26 ~g~~I~I~G~~GsGKSTl~k~La~~L   51 (252)
T 4e22_A           26 IAPVITVDGPSGAGKGTLCKALAESL   51 (252)
T ss_dssp             TSCEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHhc
Confidence            34689999999999999999999875

>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=92.19  E-value=0.12  Score=53.37  Aligned_cols=36  Identities=25%  Similarity=0.341  Sum_probs=27.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+++|+|++|+|||||+..++..+... ...+.+.
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~-~g~V~l~  136 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNL-GKKVMFC  136 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTT-TCCEEEE
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhc-CCEEEEE
Confidence            46799999999999999999998866543 3334443

>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding, nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A {Thermococcus onnurineus}

Probab=92.05  E-value=0.073  Score=60.62  Aligned_cols=48  Identities=25%  Similarity=0.309  Sum_probs=39.3

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....++|.+..++.+...+..+    ..+.|+|++|+||||||+.++..+..
T Consensus        39 ~l~~i~G~~~~l~~l~~~i~~g----~~vll~Gp~GtGKTtlar~ia~~l~~   86 (604)
T 3k1j_A           39 LIDQVIGQEHAVEVIKTAANQK----RHVLLIGEPGTGKSMLGQAMAELLPT   86 (604)
T ss_dssp             HHHHCCSCHHHHHHHHHHHHTT----CCEEEECCTTSSHHHHHHHHHHTSCC
T ss_pred             ccceEECchhhHhhccccccCC----CEEEEEeCCCCCHHHHHHHHhccCCc
Confidence            3456899998888888777743    58899999999999999999986543

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=92.05  E-value=0.088  Score=52.39  Aligned_cols=26  Identities=23%  Similarity=0.383  Sum_probs=23.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|.|||||++.++..+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~l   49 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMELL   49 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            45799999999999999999988754

>1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2

Probab=92.03  E-value=0.45  Score=52.70  Aligned_cols=54  Identities=7%  Similarity=-0.015  Sum_probs=36.7

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRNQVLSKL  263 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l  263 (709)
                      ....++.|.|.+|+||||||.+++.....+ -..++|+. .    +  ....++...++...
T Consensus       240 ~~G~l~li~G~pG~GKT~lal~~a~~~a~~~g~~vl~~s-~----E--~s~~~l~~r~~~~~  294 (503)
T 1q57_A          240 RGGEVIMVTSGSGMVMSTFVRQQALQWGTAMGKKVGLAM-L----E--ESVEETAEDLIGLH  294 (503)
T ss_dssp             CTTCEEEEEESSCHHHHHHHHHHHHHHTTTSCCCEEEEE-S----S--SCHHHHHHHHHHHH
T ss_pred             CCCeEEEEeecCCCCchHHHHHHHHHHHHhcCCcEEEEe-c----c--CCHHHHHHHHHHHH
Confidence            346789999999999999999999887654 33455654 1    1  23345555555443

>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=92.00  E-value=0.084  Score=50.65  Aligned_cols=23  Identities=30%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|.|+.|+||||+|+.++..+
T Consensus         4 ~i~i~G~~GsGKst~~~~la~~l   26 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAAAL   26 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHhc
Confidence            79999999999999999998865

>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA capture mechanism, ATP-binding, hydrolase, nucleotide-binding, RN binding; 2.35A {Thermotoga maritima}

Probab=92.00  E-value=0.3  Score=51.77  Aligned_cols=40  Identities=18%  Similarity=0.044  Sum_probs=28.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhccc-ceEEEeeec
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYFMANVR  243 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~v~~~~  243 (709)
                      ..+.++|.|.+|+|||+|+.++++.+..+.+ ..+.+..++
T Consensus       174 rGQR~lIfg~~g~GKT~Ll~~Ia~~i~~~~~dv~~V~~lIG  214 (427)
T 3l0o_A          174 KGQRGMIVAPPKAGKTTILKEIANGIAENHPDTIRIILLID  214 (427)
T ss_dssp             TTCEEEEEECTTCCHHHHHHHHHHHHHHHCTTSEEEEEECS
T ss_pred             CCceEEEecCCCCChhHHHHHHHHHHhhcCCCeEEEEEEec
Confidence            3467899999999999999999997765433 333444344

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=91.99  E-value=0.062  Score=55.16  Aligned_cols=27  Identities=19%  Similarity=0.348  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +..+|+|.|++|+||||+|+.+.+.+.
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~~lg   30 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQIFR   30 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456899999999999999999988654

>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=91.91  E-value=0.13  Score=51.90  Aligned_cols=38  Identities=16%  Similarity=0.173  Sum_probs=29.7

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+..+|....+....+.|+|++|.|||.+|..+++.
T Consensus        90 ~~~l~~~l~~~~~~~n~~~l~GppgtGKt~~a~ala~~  127 (267)
T 1u0j_A           90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            34466777654344567999999999999999999885

>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=91.85  E-value=0.082  Score=51.10  Aligned_cols=26  Identities=23%  Similarity=0.336  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|+|||||++.+...+
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            35789999999999999999998765

>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=91.80  E-value=0.46  Score=53.56  Aligned_cols=28  Identities=32%  Similarity=0.289  Sum_probs=23.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+++.|+|.+|.||||++..+...+...
T Consensus       204 ~~~~~I~G~pGTGKTt~i~~l~~~l~~~  231 (574)
T 3e1s_A          204 HRLVVLTGGPGTGKSTTTKAVADLAESL  231 (574)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            3688999999999999999998876554

>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=91.79  E-value=0.096  Score=54.34  Aligned_cols=28  Identities=29%  Similarity=0.425  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ....+++|.|+.|+|||||++.+...+.
T Consensus        88 ~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           88 PVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             CCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            4568999999999999999999887654

>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=91.77  E-value=0.096  Score=53.45  Aligned_cols=24  Identities=29%  Similarity=0.577  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+|+|.|++|+||||+|+.+..
T Consensus        74 ~~~iI~I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           74 GLYVLGLTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999983

>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=91.76  E-value=0.1  Score=50.73  Aligned_cols=23  Identities=30%  Similarity=0.369  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..+|+|.|+.|+||||+++.+..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999876

>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=91.76  E-value=0.09  Score=51.57  Aligned_cols=27  Identities=15%  Similarity=0.202  Sum_probs=23.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+++|.|+.|+|||||.+.+.....
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            457999999999999999999988654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=91.73  E-value=0.094  Score=54.86  Aligned_cols=25  Identities=32%  Similarity=0.332  Sum_probs=22.5

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|+|.|++|+||||||..++..+.
T Consensus         8 ~lI~I~GptgSGKTtla~~La~~l~   32 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAKKFN   32 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             ceEEEECCCcCcHHHHHHHHHHHcC
Confidence            5899999999999999999998753

>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=91.71  E-value=0.094  Score=50.91  Aligned_cols=23  Identities=22%  Similarity=0.316  Sum_probs=20.7

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|+|.|++|+||||+|+.+++++
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~~~   24 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIMEKY   24 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            37899999999999999998865

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=91.70  E-value=0.076  Score=51.95  Aligned_cols=26  Identities=31%  Similarity=0.561  Sum_probs=22.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|+|+.|+|||||++.+....
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999998754

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=91.67  E-value=0.095  Score=51.34  Aligned_cols=23  Identities=30%  Similarity=0.488  Sum_probs=20.8

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|.|.|++|+||||+|+.++..+
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~~l   24 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKDKY   24 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999998875

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=91.65  E-value=0.075  Score=53.26  Aligned_cols=26  Identities=31%  Similarity=0.410  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...|+|.|++|+||||+++.++..+.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~lg   73 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARSLG   73 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcC
Confidence            35799999999999999999998653

>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=91.62  E-value=0.14  Score=54.24  Aligned_cols=49  Identities=27%  Similarity=0.277  Sum_probs=34.8

Q ss_pred             hHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          192 EQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       192 ~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..|-..|. .+-+..+++.|.|.+|+||||||.+++......-..++|+.
T Consensus        60 ~~LD~~Lg~GGl~~G~li~I~G~pGsGKTtlal~la~~~~~~g~~vlyi~  109 (366)
T 1xp8_A           60 LSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID  109 (366)
T ss_dssp             HHHHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHHhCCCCccCCcEEEEEcCCCCChHHHHHHHHHHHHHCCCeEEEEE
Confidence            34444454 22234578999999999999999999887655444667776

>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=91.52  E-value=0.1  Score=51.37  Aligned_cols=26  Identities=27%  Similarity=0.211  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...|.|.|++|+||||+|+.+++++.
T Consensus        16 ~~~I~l~G~~GsGKsT~a~~La~~l~   41 (233)
T 1ak2_A           16 GVRAVLLGPPGAGKGTQAPKLAKNFC   41 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhC
Confidence            35789999999999999999998753

>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=91.52  E-value=0.21  Score=51.02  Aligned_cols=37  Identities=14%  Similarity=0.102  Sum_probs=28.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhccc-ceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~v~  240 (709)
                      ...+++|.|++|+|||||+..++..+..... .+.|+.
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~~~~G~~v~~~~   71 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM   71 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHHHTSCCCEEEEE
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHHHHcCCeEEEEe
Confidence            4579999999999999999999987654433 344443

>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=91.45  E-value=0.17  Score=47.56  Aligned_cols=27  Identities=22%  Similarity=0.359  Sum_probs=23.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .++++|.|.+|+|||||+..+...+..
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~l~~   32 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPALCA   32 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhccc
Confidence            578999999999999999999987654

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=91.40  E-value=0.1  Score=54.13  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=22.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+|.|.|++|+||||||..++.++
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~l   29 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADAL   29 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHc
Confidence            589999999999999999999875

>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=91.35  E-value=0.11  Score=51.56  Aligned_cols=25  Identities=20%  Similarity=0.340  Sum_probs=22.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|+|.|++|.||||+|+.++..+
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~~l   33 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLARAL   33 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHh
Confidence            4589999999999999999998875

>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=91.34  E-value=0.11  Score=53.60  Aligned_cols=25  Identities=28%  Similarity=0.425  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|+|.|++|+||||||..++.++
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~~   27 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKRL   27 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHhC
Confidence            3688999999999999999998864

>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=91.29  E-value=0.13  Score=53.01  Aligned_cols=26  Identities=19%  Similarity=0.110  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...++.|.|+.|+||||||..+++++
T Consensus         9 ~~~~i~i~GptgsGKt~la~~La~~~   34 (316)
T 3foz_A            9 LPKAIFLMGPTASGKTALAIELRKIL   34 (316)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CCcEEEEECCCccCHHHHHHHHHHhC
Confidence            35789999999999999999998874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=91.27  E-value=0.086  Score=55.02  Aligned_cols=25  Identities=24%  Similarity=0.413  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..+|.|.|+.|+||||||..++.++
T Consensus        40 ~~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           40 EKLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHC
Confidence            4689999999999999999999875

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=91.25  E-value=0.18  Score=52.00  Aligned_cols=28  Identities=29%  Similarity=0.398  Sum_probs=24.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+++|+|+.|+||||+++.++..+..
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  126 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  126 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            4579999999999999999999887654

>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=91.22  E-value=0.1  Score=50.08  Aligned_cols=25  Identities=28%  Similarity=0.121  Sum_probs=22.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.|.|.|++|+||||||.+++.+.
T Consensus        34 g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           34 GLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHhC
Confidence            4678999999999999999998864

>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=91.15  E-value=0.13  Score=47.54  Aligned_cols=26  Identities=27%  Similarity=0.294  Sum_probs=23.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|.|||||++.++.-+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC
Confidence            45799999999999999999998865

>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=91.07  E-value=0.12  Score=50.10  Aligned_cols=88  Identities=20%  Similarity=0.263  Sum_probs=46.2

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcccceEEEee---ecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMAN---VREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDR  282 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~---~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~  282 (709)
                      +|.|.|++|+||||+|+.+++++.     ...++.   +++.......+-...+..+..  +.   .-.++ ....+.+.
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~~g-----~~~istGdllR~~i~~~t~lg~~~~~~~~~--G~---lvpd~iv~~lv~~~   71 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKEKG-----FVHISTGDILREAVQKGTPLGKKAKEYMER--GE---LVPDDLIIALIEEV   71 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHC-----CEEEEHHHHHHHHHHHTCHHHHHHHHHHHH--TC---CCCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC-----CeEEcHHHHHHHHHHhcChhhhhHHHHHhc--CC---cCCHHHHHHHHHHh
Confidence            477899999999999999988641     122320   000000001111111111111  11   11222 56677777


Q ss_pred             HccCceEEEecCC-CChhhhhhhh
Q 005191          283 LQRMKVFIVLDDV-NKYGQLEYFD  305 (709)
Q Consensus       283 L~~kr~LLVLDdv-~~~~~~~~l~  305 (709)
                      +..... +|||.. .+..|.+.+.
T Consensus        72 l~~~~~-~ilDGfPRt~~Qa~~l~   94 (206)
T 3sr0_A           72 FPKHGN-VIFDGFPRTVKQAEALD   94 (206)
T ss_dssp             CCSSSC-EEEESCCCSHHHHHHHH
T ss_pred             hccCCc-eEecCCchhHHHHHHHH
Confidence            766554 688998 5566665553

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=90.98  E-value=0.21  Score=49.80  Aligned_cols=27  Identities=30%  Similarity=0.350  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...++.+.|.||+||||++..++..+.
T Consensus        13 ~~~i~~~~GkgGvGKTTl~~~La~~l~   39 (262)
T 1yrb_A           13 ASMIVVFVGTAGSGKTTLTGEFGRYLE   39 (262)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHT
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            367888999999999999999998766

>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability, potential tentoxin binding hydrolase; 3.20A {Spinacia oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*

Probab=90.97  E-value=0.26  Score=53.90  Aligned_cols=54  Identities=20%  Similarity=0.230  Sum_probs=36.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLRNQVLS  261 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~~~ll~  261 (709)
                      ..+.++|.|.+|+|||+|+.++++.+... -+..+|. .+++..   ....++.+.+..
T Consensus       164 kGqr~gIfgg~GvGKT~L~~~l~~~~a~~~~~v~V~~-~iGER~---rEv~e~~~~~~~  218 (498)
T 1fx0_B          164 RGGKIGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG-GVGERT---REGNDLYMEMKE  218 (498)
T ss_dssp             TTCCEEEEECSSSSHHHHHHHHHHHTTTTCSSCEEEE-EESCCS---HHHHHHHHHHHH
T ss_pred             cCCeEEeecCCCCCchHHHHHHHHHHHhhCCCEEEEE-EcccCc---HHHHHHHHhhhc
Confidence            34678999999999999999999986543 3444444 344432   234555555554

>2r8r_A Sensor protein; KDPD, PFAM02702, MCSG, structural genomics, protein structure initiative, midwest center for structural genomics, kinase; 2.30A {Pseudomonas syringae PV}

Probab=90.97  E-value=0.25  Score=48.41  Aligned_cols=27  Identities=19%  Similarity=0.011  Sum_probs=22.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      -.|.+.|.||+||||+|..++.....+
T Consensus         7 l~I~~~~kgGvGKTt~a~~la~~l~~~   33 (228)
T 2r8r_A            7 LKVFLGAAPGVGKTYAMLQAAHAQLRQ   33 (228)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCcHHHHHHHHHHHHHHC
Confidence            347789999999999999999877654

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=90.82  E-value=0.22  Score=63.31  Aligned_cols=48  Identities=29%  Similarity=0.326  Sum_probs=34.9

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|..+|. .+-+..+.+.|+|++|+|||+||.+++.....+=....|+.
T Consensus      1414 ~LD~lLG~GGi~~g~~vll~GppGtGKT~LA~ala~ea~~~G~~v~Fi~ 1462 (2050)
T 3cmu_A         1414 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID 1462 (2050)
T ss_dssp             HHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             HHHHhcCCCCccCCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            3444444 22335689999999999999999999987665545566665

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=90.77  E-value=0.086  Score=51.87  Aligned_cols=25  Identities=28%  Similarity=0.300  Sum_probs=16.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHH-HHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVF-NQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~-~~~  229 (709)
                      ..+++|+|+.|+|||||++.+. ...
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999998 643

>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=90.69  E-value=0.13  Score=52.69  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=21.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+|.|.|++|+||||+|+.+.++
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~~   25 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIAK   25 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57899999999999999999874

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=90.68  E-value=0.095  Score=49.25  Aligned_cols=26  Identities=23%  Similarity=0.341  Sum_probs=22.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .+++|+|.+|+|||||++.+...+..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~~~   28 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPILRE   28 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHhhh
Confidence            57999999999999999999887654

>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=90.66  E-value=0.15  Score=52.72  Aligned_cols=28  Identities=29%  Similarity=0.280  Sum_probs=24.3

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ....+++|.|+.|.|||||++.+...+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~l~  105 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQALLS  105 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            3467999999999999999999988654

>2orw_A Thymidine kinase; TMTK, TP4A, transferase; HET: 4TA; 1.50A {Thermotoga maritima} PDB: 2qpo_A 2qq0_A* 2qqe_A*

Probab=90.58  E-value=0.22  Score=47.27  Aligned_cols=26  Identities=27%  Similarity=0.093  Sum_probs=22.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .++.|+|+.|+||||++..++.+...
T Consensus         4 ~i~vi~G~~gsGKTT~ll~~~~~~~~   29 (184)
T 2orw_A            4 KLTVITGPMYSGKTTELLSFVEIYKL   29 (184)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            57889999999999999888876543

>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=90.49  E-value=0.18  Score=53.66  Aligned_cols=29  Identities=28%  Similarity=0.297  Sum_probs=24.4

Q ss_pred             cCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          201 GLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       201 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +-+....++|+|++|.|||||++.++...
T Consensus       165 ~i~~~~~i~l~G~~GsGKSTl~~~l~~~~  193 (377)
T 1svm_A          165 NIPKKRYWLFKGPIDSGKTTLAAALLELC  193 (377)
T ss_dssp             CCTTCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             ccCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            33456799999999999999999998754

>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=90.47  E-value=0.19  Score=55.69  Aligned_cols=46  Identities=9%  Similarity=-0.008  Sum_probs=31.7

Q ss_pred             ccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          186 GLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       186 GR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .|.+-.+.+.+..........+|.+.|++|+||||+|+.+++++..
T Consensus       376 ~rpeV~~vLr~~~~~~~~~~~~I~l~GlsGsGKSTIa~~La~~L~~  421 (511)
T 1g8f_A          376 SYPEVVKILRESNPPRPKQGFSIVLGNSLTVSREQLSIALLSTFLQ  421 (511)
T ss_dssp             SCHHHHHHHHHHSCCGGGCCEEEEECTTCCSCHHHHHHHHHHHHTT
T ss_pred             cChhhHHHHHHhcccccccceEEEecccCCCCHHHHHHHHHHHHHH
Confidence            3433344444444222234578999999999999999999998764

>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=90.40  E-value=0.12  Score=55.85  Aligned_cols=26  Identities=23%  Similarity=0.239  Sum_probs=23.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|.|+|++|+||||+|+.++.+.
T Consensus       257 ~~~lIil~G~pGSGKSTla~~L~~~~  282 (416)
T 3zvl_A          257 NPEVVVAVGFPGAGKSTFIQEHLVSA  282 (416)
T ss_dssp             SCCEEEEESCTTSSHHHHHHHHTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhc
Confidence            46899999999999999999988764

>1cp2_A CP2, nitrogenase iron protein; oxidoreductase; 1.93A {Clostridium pasteurianum} SCOP: c.37.1.10

Probab=90.38  E-value=0.25  Score=49.61  Aligned_cols=34  Identities=29%  Similarity=0.414  Sum_probs=26.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      ++|+|.|-||+||||+|..++..+..+-..+..+
T Consensus         2 ~vI~vs~KGGvGKTT~a~nLA~~la~~G~~Vlli   35 (269)
T 1cp2_A            2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVV   35 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             cEEEEecCCCCcHHHHHHHHHHHHHHCCCcEEEE
Confidence            5788899999999999999998876543333333

>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=90.29  E-value=0.18  Score=49.61  Aligned_cols=28  Identities=25%  Similarity=0.401  Sum_probs=24.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....|+|.|++|+||||+++.+...+..
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~l~~   52 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHRLVK   52 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHHHTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            4578999999999999999999998765

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=90.26  E-value=0.24  Score=52.26  Aligned_cols=28  Identities=29%  Similarity=0.398  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+++|+|+.|+||||++..++..+..
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag~l~~  183 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAHRLKN  183 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHhhccc
Confidence            4679999999999999999999887654

>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=90.25  E-value=0.22  Score=50.42  Aligned_cols=28  Identities=21%  Similarity=0.226  Sum_probs=23.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++.|.|++|+|||||+..++..+..
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~~~~~   56 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAAQIAG   56 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHHHhc
Confidence            3579999999999999999999875543

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=90.21  E-value=0.17  Score=49.93  Aligned_cols=26  Identities=27%  Similarity=0.424  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|+|.|+.|+||||+++.++..+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~~l   40 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAKDF   40 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHc
Confidence            46789999999999999999998764

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=90.20  E-value=0.14  Score=48.95  Aligned_cols=24  Identities=29%  Similarity=0.285  Sum_probs=21.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +++|+|+.|+|||||++.++..+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            689999999999999999988654

>2afh_E Nitrogenase iron protein 1; nitrogen fixation, iron-sulfur, metal-binding, molybdenum, oxidoreductase; HET: HCA CFN CLF PGE PG4 P6G 1PE; 2.10A {Azotobacter vinelandii} SCOP: c.37.1.10 PDB: 1g1m_A 1g5p_A 1m1y_E* 1m34_E* 1n2c_E* 1nip_A* 1fp6_A* 2afi_E* 2afk_E* 2nip_A 1de0_A 1xcp_A* 1xdb_A 1xd8_A 1xd9_A* 1g20_E* 1g21_E* 2c8v_A* 1rw4_A

Probab=90.16  E-value=0.27  Score=50.06  Aligned_cols=28  Identities=32%  Similarity=0.609  Sum_probs=24.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .++|+|.|-||+||||+|..++..+...
T Consensus         2 MkvIavs~KGGvGKTT~a~nLA~~La~~   29 (289)
T 2afh_E            2 MRQCAIYGKGGIGKSTTTQNLVAALAEM   29 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHT
T ss_pred             ceEEEEeCCCcCcHHHHHHHHHHHHHHC
Confidence            3678889999999999999999887654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=90.03  E-value=0.18  Score=49.97  Aligned_cols=26  Identities=23%  Similarity=0.355  Sum_probs=23.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...|+|.|..|+||||+++.+++.+.
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~~l~   27 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTKTYP   27 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHCT
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHcC
Confidence            46799999999999999999998764

>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=90.03  E-value=0.16  Score=53.48  Aligned_cols=35  Identities=26%  Similarity=0.344  Sum_probs=27.2

Q ss_pred             HhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          195 RSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       195 ~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...|..+-+...++.|+|++|+|||||+..++...
T Consensus       121 D~lL~ggi~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          121 DKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             HHHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             HHHhcCCCCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34443333456899999999999999999998865

>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=90.02  E-value=0.4  Score=50.24  Aligned_cols=30  Identities=20%  Similarity=0.238  Sum_probs=25.3

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .+..+++|+|.+|+|||||+..+...+...
T Consensus        54 ~~~~~i~i~G~~g~GKSTl~~~l~~~~~~~   83 (341)
T 2p67_A           54 GNTLRLGVTGTPGAGKSTFLEAFGMLLIRE   83 (341)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHHHHHHhc
Confidence            457899999999999999999998765443

>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=89.85  E-value=0.5  Score=59.38  Aligned_cols=51  Identities=27%  Similarity=0.273  Sum_probs=36.0

Q ss_pred             hhhHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          190 HVEQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       190 el~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      -..+|..+|. .+-....++.|.|.+|+||||||.+++......-..+.|+.
T Consensus       716 G~~eLD~lLg~GGl~~G~lVlI~G~PG~GKTtLal~lA~~aa~~g~~VlyiS  767 (1706)
T 3cmw_A          716 GSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  767 (1706)
T ss_dssp             SCHHHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CcHHHHHHhccCCcCCCceEEEECCCCCCcHHHHHHHHHHHHHcCCCeEEEe
Confidence            3445555554 23334679999999999999999999987765434555664

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=89.84  E-value=0.36  Score=53.31  Aligned_cols=29  Identities=24%  Similarity=0.370  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++|+|+|.+|+||||++..++..+...
T Consensus       100 ~~~vI~ivG~~GvGKTTl~~kLA~~l~~~  128 (504)
T 2j37_W          100 KQNVIMFVGLQGSGKTTTCSKLAYYYQRK  128 (504)
T ss_dssp             --EEEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            46799999999999999999999877654

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=89.81  E-value=0.18  Score=54.82  Aligned_cols=29  Identities=24%  Similarity=0.367  Sum_probs=25.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++|+|+|.+|+||||++..++..+..+
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~~~  126 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQKR  126 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            35789999999999999999999876654

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=89.78  E-value=0.3  Score=50.14  Aligned_cols=29  Identities=34%  Similarity=0.348  Sum_probs=25.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+++|+|.+|+||||++..++..+...
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~  125 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            45789999999999999999999876654

>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=89.69  E-value=0.29  Score=53.75  Aligned_cols=36  Identities=31%  Similarity=0.459  Sum_probs=28.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+++|+|.+|+|||||++.++..+... ...+++.
T Consensus       292 ~GeVI~LVGpNGSGKTTLl~~LAgll~~~-~G~V~l~  327 (503)
T 2yhs_A          292 APFVILMVGVNGVGKTTTIGKLARQFEQQ-GKSVMLA  327 (503)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHHHHHHHT-TCCEEEE
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHhhhc-CCeEEEe
Confidence            46799999999999999999998876543 3444443

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=89.54  E-value=0.17  Score=49.14  Aligned_cols=24  Identities=33%  Similarity=0.163  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..+++|.|+.|.|||||++.++.-
T Consensus        22 Ge~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           22 NTIVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             CSEEEEECCTTSSTTHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcC
Confidence            358999999999999999988764

>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=89.51  E-value=0.29  Score=50.71  Aligned_cols=37  Identities=27%  Similarity=0.305  Sum_probs=27.6

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .|..+|..+-+...++.|.|.+|+|||+||.+++...
T Consensus        86 ~LD~~l~GGl~~g~i~~i~G~~gsGKT~la~~la~~~  122 (322)
T 2i1q_A           86 ELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNL  122 (322)
T ss_dssp             HHHHHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             hHHHhcCCCccCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3444444333346899999999999999999998763

>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=89.49  E-value=0.2  Score=53.55  Aligned_cols=25  Identities=24%  Similarity=0.509  Sum_probs=22.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|+|.|++|+||||||..++.++.
T Consensus         3 ~~i~i~GptgsGKttla~~La~~~~   27 (409)
T 3eph_A            3 KVIVIAGTTGVGKSQLSIQLAQKFN   27 (409)
T ss_dssp             EEEEEEECSSSSHHHHHHHHHHHHT
T ss_pred             cEEEEECcchhhHHHHHHHHHHHCC
Confidence            5789999999999999999998753

>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=89.45  E-value=0.16  Score=50.30  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++.
T Consensus        30 ~Ge~~~iiG~nGsGKSTLl~~l~G   53 (235)
T 3tif_A           30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (235)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457999999999999999998865

>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=89.39  E-value=0.59  Score=45.41  Aligned_cols=28  Identities=21%  Similarity=0.287  Sum_probs=24.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...|+|.|+.|+||||+++.+.+.+...
T Consensus         6 g~~i~~eG~~gsGKsT~~~~l~~~l~~~   33 (213)
T 4edh_A            6 GLFVTLEGPEGAGKSTNRDYLAERLRER   33 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHTT
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            4689999999999999999999987654

>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=89.38  E-value=2.5  Score=42.85  Aligned_cols=24  Identities=21%  Similarity=0.260  Sum_probs=20.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..-.++|+|.+|+|||||...+..
T Consensus       119 ~~~~v~~vG~~nvGKSsliN~l~~  142 (282)
T 1puj_A          119 RAIRALIIGIPNVGKSTLINRLAK  142 (282)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CCceEEEEecCCCchHHHHHHHhc
Confidence            345788999999999999988865

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=89.33  E-value=0.18  Score=50.06  Aligned_cols=25  Identities=16%  Similarity=0.227  Sum_probs=22.1

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .. .+++|.|+.|.|||||.+.++.-
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCC
Confidence            35 79999999999999999998763

>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=89.15  E-value=0.2  Score=47.40  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=21.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .-.++|.|.+|+|||||.+.+...
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~   52 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRN   52 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            457899999999999999998874

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=89.09  E-value=0.53  Score=49.21  Aligned_cols=29  Identities=28%  Similarity=0.371  Sum_probs=24.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....+++|.|++|+|||||...+...+..
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g~~~~   81 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGSLLTA   81 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            45689999999999999999999876543

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=89.06  E-value=0.23  Score=44.87  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +-|+|.|.+|+|||||...+...
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            46889999999999999998864

>4hlc_A DTMP kinase, thymidylate kinase; TMK, MRSA, pipiridine, transfera transferase inhibitor complex; HET: T05; 1.55A {Staphylococcus aureus subsp} PDB: 2cck_A 4gfd_A* 4gsy_A* 4hdc_A* 4hej_A* 2ccj_A* 4hld_A* 2ccg_A*

Probab=89.05  E-value=0.33  Score=46.95  Aligned_cols=29  Identities=24%  Similarity=0.528  Sum_probs=25.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhccc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFE  234 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  234 (709)
                      ..|+|-|..|+||||+++.+++.+...++
T Consensus         3 kFI~~EG~dGsGKsTq~~~L~~~L~~~~~   31 (205)
T 4hlc_A            3 AFITFEGPEGSGKTTVINEVYHRLVKDYD   31 (205)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHHHTTTSC
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHCCCC
Confidence            46889999999999999999998865554

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=88.99  E-value=0.17  Score=49.73  Aligned_cols=24  Identities=29%  Similarity=0.346  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        29 ~Ge~~~iiG~nGsGKSTLl~~l~G   52 (224)
T 2pcj_A           29 KGEFVSIIGASGSGKSTLLYILGL   52 (224)
T ss_dssp             TTCEEEEEECTTSCHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            346899999999999999998875

>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=88.93  E-value=0.36  Score=53.75  Aligned_cols=30  Identities=17%  Similarity=0.110  Sum_probs=25.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ...+|.++|++|.||||+|+.+++.+...+
T Consensus        34 ~~~lIvlvGlpGSGKSTia~~La~~L~~~~   63 (520)
T 2axn_A           34 SPTVIVMVGLPARGKTYISKKLTRYLNWIG   63 (520)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcC
Confidence            457899999999999999999998765443

>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=88.90  E-value=0.2  Score=53.83  Aligned_cols=37  Identities=16%  Similarity=0.272  Sum_probs=26.9

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..|-.+|..+-....++.|.|++|+|||||+..++-.
T Consensus       165 ~~LD~lLgGGI~~Gei~~I~G~sGsGKTTLl~~la~~  201 (400)
T 3lda_A          165 KNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVT  201 (400)
T ss_dssp             HHHHHHTTTSEETTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             hhHHHHhcCCcCCCcEEEEEcCCCCChHHHHHHHHHH
Confidence            3444455433334679999999999999999987643

>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=88.66  E-value=0.21  Score=47.49  Aligned_cols=24  Identities=21%  Similarity=0.307  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .-.++|.|.+|+|||||...+...
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~   28 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRN   28 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999999874

>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=88.66  E-value=0.24  Score=45.49  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..|+|.|.+|+|||||...+..
T Consensus         4 ~~v~lvG~~gvGKStL~~~l~~   25 (165)
T 2wji_A            4 YEIALIGNPNVGKSTIFNALTG   25 (165)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHC
T ss_pred             cEEEEECCCCCCHHHHHHHHhC
Confidence            4689999999999999999876

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=88.65  E-value=0.26  Score=46.14  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+-+.|.|.+|+||||||.++..+
T Consensus        16 G~gvli~G~SGaGKStlal~L~~r   39 (181)
T 3tqf_A           16 KMGVLITGEANIGKSELSLALIDR   39 (181)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHHT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            467889999999999999999885

>2j9r_A Thymidine kinase; TK1, DNK, lasso, transferase, ATP-binding, deoxyribonucleoside kinase, DNA synthesis, phosphate accept nucleotide-binding; HET: THM; 2.7A {Bacillus anthracis} PDB: 2ja1_A*

Probab=88.54  E-value=0.73  Score=44.68  Aligned_cols=110  Identities=15%  Similarity=0.021  Sum_probs=53.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL  283 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L  283 (709)
                      ...+..++|.-|.||||.+...+.+...+-..+..+......  . .+.    ..+.+.++........... ..+.+.+
T Consensus        27 ~G~l~vitG~MgsGKTT~lL~~a~r~~~~g~kVli~k~~~d~--R-~ge----~~i~s~~g~~~~a~~~~~~-~~~~~~~   98 (214)
T 2j9r_A           27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDN--R-YSE----EDVVSHNGLKVKAVPVSAS-KDIFKHI   98 (214)
T ss_dssp             SCEEEEEECSTTSCHHHHHHHHHHHHHHTTCCEEEEECC------------------------CCEEECSSG-GGGGGGC
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHHHHHCCCEEEEEEeccCC--c-chH----HHHHhhcCCeeEEeecCCH-HHHHHHH
Confidence            357888999999999999999988876554344433311110  0 111    1233333211111000101 1122222


Q ss_pred             ccCceEEEecCCC--ChhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          284 QRMKVFIVLDDVN--KYGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       284 ~~kr~LLVLDdv~--~~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      .++--+|++|.+.  +.++++.+... .  ..|..||+|.++.
T Consensus        99 ~~~~dvViIDEaQF~~~~~V~~l~~l-~--~~~~~Vi~~Gl~~  138 (214)
T 2j9r_A           99 TEEMDVIAIDEVQFFDGDIVEVVQVL-A--NRGYRVIVAGLDQ  138 (214)
T ss_dssp             CSSCCEEEECCGGGSCTTHHHHHHHH-H--HTTCEEEEEECSB
T ss_pred             hcCCCEEEEECcccCCHHHHHHHHHH-h--hCCCEEEEEeccc
Confidence            2333499999983  34455443321 1  2377899999854

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=88.49  E-value=0.29  Score=54.82  Aligned_cols=28  Identities=25%  Similarity=0.305  Sum_probs=24.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+++|.|+.|+|||||++.++..+..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L~~  395 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARLME  395 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHHHT
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhhcc
Confidence            4578999999999999999999988754

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=88.49  E-value=0.2  Score=50.46  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4579999999999999999988753

>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=88.45  E-value=0.32  Score=50.13  Aligned_cols=27  Identities=15%  Similarity=0.321  Sum_probs=23.5

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +...+++|+|+.|.|||||++.+..-+
T Consensus       124 ~~Ge~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          124 PKKNCLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             TTCSEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhhhc
Confidence            355799999999999999999988754

>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=88.45  E-value=0.2  Score=46.95  Aligned_cols=21  Identities=33%  Similarity=0.379  Sum_probs=19.0

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|+|+|.+|+|||||...+..
T Consensus         4 kv~ivG~~gvGKStLl~~l~~   24 (184)
T 2zej_A            4 KLMIVGNTGSGKTTLLQQLMK   24 (184)
T ss_dssp             EEEEESCTTSSHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhc
Confidence            478999999999999998876

>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=88.39  E-value=0.23  Score=49.42  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++.
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G   50 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLER   50 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            457999999999999999999875

>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=88.35  E-value=0.24  Score=44.83  Aligned_cols=22  Identities=23%  Similarity=0.495  Sum_probs=19.5

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|++.|.+|+|||||+..+...
T Consensus         5 ~i~v~G~~~~GKssl~~~l~~~   26 (166)
T 2ce2_X            5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4789999999999999998764

>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane protein; HET: ADP; 2.11A {Methanothermobacter thermautotrophicusorganism_taxid}

Probab=88.26  E-value=0.45  Score=49.41  Aligned_cols=36  Identities=28%  Similarity=0.344  Sum_probs=27.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..++...|-||+||||+|..++..+...-..+..+.
T Consensus        14 ~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD   49 (324)
T 3zq6_A           14 TTFVFIGGKGGVGKTTISAATALWMARSGKKTLVIS   49 (324)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCchHHHHHHHHHHHHHHCCCcEEEEe
Confidence            467777899999999999999998776633344443

>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=88.20  E-value=0.24  Score=49.53  Aligned_cols=25  Identities=20%  Similarity=0.401  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        28 ~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           28 KGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999998873

>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=88.18  E-value=0.25  Score=49.86  Aligned_cols=25  Identities=24%  Similarity=0.384  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4568999999999999999998874

>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG, PRK04182 class ME structural genomics, protein structure initiative; 2.20A {Eubacterium ventriosum}

Probab=88.16  E-value=0.27  Score=47.30  Aligned_cols=25  Identities=16%  Similarity=0.199  Sum_probs=23.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|+|.|+.|+||||+|+.+++++.
T Consensus         7 ~iI~i~g~~GsGk~ti~~~la~~lg   31 (201)
T 3fdi_A            7 IIIAIGREFGSGGHLVAKKLAEHYN   31 (201)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHTT
T ss_pred             eEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            5899999999999999999999864

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=88.16  E-value=0.59  Score=45.89  Aligned_cols=28  Identities=21%  Similarity=0.388  Sum_probs=21.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...|+|.|+.|+||||+++.+++.+...
T Consensus        25 g~~I~~eG~~GsGKsT~~~~l~~~l~~~   52 (227)
T 3v9p_A           25 GKFITFEGIDGAGKTTHLQWFCDRLQER   52 (227)
T ss_dssp             CCEEEEECCC---CHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            4689999999999999999999987654

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=88.09  E-value=0.33  Score=47.75  Aligned_cols=32  Identities=28%  Similarity=0.600  Sum_probs=24.6

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      |+|.|-||+||||+|..++..+...-..+..+
T Consensus         3 I~vs~kGGvGKTt~a~~LA~~la~~g~~Vlli   34 (254)
T 3kjh_A            3 LAVAGKGGVGKTTVAAGLIKIMASDYDKIYAV   34 (254)
T ss_dssp             EEEECSSSHHHHHHHHHHHHHHTTTCSCEEEE
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHCCCeEEEE
Confidence            56699999999999999999876653333333

>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=88.09  E-value=0.21  Score=50.78  Aligned_cols=24  Identities=25%  Similarity=0.336  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||++.++-
T Consensus        33 ~Ge~~~iiGpnGsGKSTLl~~l~G   56 (275)
T 3gfo_A           33 RGEVTAILGGNGVGKSTLFQNFNG   56 (275)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHc
Confidence            356899999999999999998865

>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=88.02  E-value=0.23  Score=50.13  Aligned_cols=25  Identities=24%  Similarity=0.256  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcC
Confidence            4579999999999999999998753

>3cmu_A Protein RECA, recombinase A; homologous recombination, recombination/DNA complex; HET: DNA ADP; 4.20A {Escherichia coli}

Probab=88.01  E-value=1.1  Score=57.20  Aligned_cols=57  Identities=25%  Similarity=0.259  Sum_probs=40.2

Q ss_pred             ccccchhhhHHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          184 LIGLESHVEQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+...-...|-.+|. .+-+..+++.|.|++|+||||||.+++......-..++|+.
T Consensus       361 ~~~I~TG~~~LD~lLG~GGl~~G~lilI~G~pGsGKTtLaLqia~~~a~~G~~vlyis  418 (2050)
T 3cmu_A          361 VETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID  418 (2050)
T ss_dssp             CCEECCSCHHHHHHHSSSSEETTSEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             CceeeCCCHHHHHHhccCCccCCcEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            3344444556666665 33345689999999999999999999988765544566665

>3ug7_A Arsenical pump-driving ATPase; tail-anchored, membrane protein, targeting factor, ATP-bindi TRC40, ARSA, nucleotide-binding; HET: ADP; 2.90A {Methanocaldococcus jannaschii} PDB: 3ug6_A*

Probab=87.95  E-value=0.64  Score=48.85  Aligned_cols=38  Identities=21%  Similarity=0.264  Sum_probs=28.4

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +..+++...|-||+||||+|..++..+...-..+..+.
T Consensus        24 ~~~~i~v~sgKGGvGKTTvA~~LA~~lA~~G~rVLlvD   61 (349)
T 3ug7_A           24 DGTKYIMFGGKGGVGKTTMSAATGVYLAEKGLKVVIVS   61 (349)
T ss_dssp             CSCEEEEEECSSSTTHHHHHHHHHHHHHHSSCCEEEEE
T ss_pred             CCCEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEe
Confidence            44667777899999999999999988776533344443

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=87.86  E-value=0.72  Score=45.60  Aligned_cols=35  Identities=26%  Similarity=0.362  Sum_probs=27.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEE
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFM  239 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v  239 (709)
                      ...|.|.|+.|+||||+++.+.+.+... ++.+...
T Consensus        27 ~~~i~~eG~~GsGKsT~~~~l~~~l~~~~~~~~~~~   62 (236)
T 3lv8_A           27 AKFIVIEGLEGAGKSTAIQVVVETLQQNGIDHITRT   62 (236)
T ss_dssp             CCEEEEEESTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCeeeee
Confidence            4689999999999999999999987654 4434433

>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=87.86  E-value=0.22  Score=50.34  Aligned_cols=24  Identities=29%  Similarity=0.461  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||++.++.
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~G   59 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTG   59 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457999999999999999999875

>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=87.84  E-value=0.22  Score=49.44  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        31 ~Ge~~~l~G~nGsGKSTLl~~l~G   54 (240)
T 1ji0_A           31 RGQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            346899999999999999999875

>3hjn_A DTMP kinase, thymidylate kinase; ATP-binding, nucleotide biosynth nucleotide-binding, transferase, structural genomics; HET: ADP TYD; 2.10A {Thermotoga maritima}

Probab=87.82  E-value=0.82  Score=43.76  Aligned_cols=33  Identities=15%  Similarity=0.250  Sum_probs=26.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      .|+|-|.-|+||||.++.+++.+..+-..+.+.
T Consensus         2 fI~~EG~DGsGKsTq~~~L~~~L~~~g~~v~~t   34 (197)
T 3hjn_A            2 FITFEGIDGSGKSTQIQLLAQYLEKRGKKVILK   34 (197)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            478899999999999999999887764444443

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=87.77  E-value=0.24  Score=49.85  Aligned_cols=25  Identities=28%  Similarity=0.413  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcc
Confidence            4569999999999999999998764

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=87.74  E-value=0.53  Score=46.20  Aligned_cols=29  Identities=31%  Similarity=0.368  Sum_probs=23.9

Q ss_pred             CceEEEEE-ccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIW-GMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~-G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..++|+|+ +-||+||||+|..++..+...
T Consensus         3 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~   32 (245)
T 3ea0_A            3 AKRVFGFVSAKGGDGGSCIAANFAFALSQE   32 (245)
T ss_dssp             CCEEEEEEESSTTSSHHHHHHHHHHHHTTS
T ss_pred             CCeEEEEECCCCCcchHHHHHHHHHHHHhC
Confidence            35677777 568999999999999988765

>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=87.72  E-value=0.22  Score=49.01  Aligned_cols=25  Identities=32%  Similarity=0.064  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+|+|.|+.|.|||||++.++..
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            4679999999999999999988765

>1m8p_A Sulfate adenylyltransferase; rossmann fold, phosphosulfate binding, T-state; HET: PPS; 2.60A {Penicillium chrysogenum} SCOP: b.122.1.3 c.26.1.5 c.37.1.15 PDB: 1i2d_A*

Probab=87.71  E-value=0.46  Score=53.45  Aligned_cols=28  Identities=21%  Similarity=0.125  Sum_probs=24.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+|.|.|++|+||||+|+.+.+++..
T Consensus       395 ~~~~I~l~GlsGSGKSTiA~~La~~L~~  422 (573)
T 1m8p_A          395 QGFTIFLTGYMNSGKDAIARALQVTLNQ  422 (573)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cceEEEeecCCCCCHHHHHHHHHHHhcc
Confidence            3578999999999999999999988653

>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=87.68  E-value=0.23  Score=49.91  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++.
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~G   55 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITG   55 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            356999999999999999999865

>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=87.66  E-value=0.25  Score=49.64  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~G   63 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIIST   63 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            457999999999999999999875

>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=87.63  E-value=0.34  Score=44.04  Aligned_cols=24  Identities=17%  Similarity=0.257  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            446789999999999999998874

>4tmk_A Protein (thymidylate kinase); ATP:DTMP phosphotransferase, transferase; HET: T5A; 1.98A {Escherichia coli} SCOP: c.37.1.1 PDB: 5tmp_A*

Probab=87.62  E-value=0.78  Score=44.56  Aligned_cols=27  Identities=37%  Similarity=0.507  Sum_probs=24.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ..|++.|+.|+||||+++.+++.+...
T Consensus         4 ~~i~~eG~~gsGKsT~~~~l~~~l~~~   30 (213)
T 4tmk_A            4 KYIVIEGLEGAGKTTARNVVVETLEQL   30 (213)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            578999999999999999999987654

>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=87.61  E-value=0.23  Score=49.53  Aligned_cols=25  Identities=28%  Similarity=0.496  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        34 ~Ge~~~i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           34 QGEVIGIVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999998653

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=87.59  E-value=0.47  Score=45.17  Aligned_cols=35  Identities=20%  Similarity=0.198  Sum_probs=26.0

Q ss_pred             eEEEEE-ccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIW-GMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ++|+|+ +-||+||||+|..++..+..+-..+..+.
T Consensus         2 ~vi~v~s~kgG~GKTt~a~~la~~la~~g~~vlliD   37 (206)
T 4dzz_A            2 KVISFLNPKGGSGKTTAVINIATALSRSGYNIAVVD   37 (206)
T ss_dssp             EEEEECCSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEEeCCCCccHHHHHHHHHHHHHHCCCeEEEEE
Confidence            567777 77899999999999998776433444444

>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A {Staphylococcus aureus}

Probab=87.58  E-value=0.26  Score=47.75  Aligned_cols=24  Identities=29%  Similarity=0.321  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+|+|.|+.|+||||+++.+...+
T Consensus         4 ~~i~i~G~~gsGkst~~~~l~~~~   27 (219)
T 2h92_A            4 INIALDGPAAAGKSTIAKRVASEL   27 (219)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhc
Confidence            468999999999999999988764

>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=87.57  E-value=0.24  Score=48.84  Aligned_cols=26  Identities=23%  Similarity=0.461  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|.|||||.+.++.-+
T Consensus        33 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           33 RGQLLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCC
Confidence            35689999999999999999987643

>2gks_A Bifunctional SAT/APS kinase; transferase, sulfurylase; HET: ADP; 2.31A {Aquifex aeolicus}

Probab=87.55  E-value=0.61  Score=52.16  Aligned_cols=28  Identities=25%  Similarity=0.241  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...+|.+.|++|+||||+|+.+...+..
T Consensus       371 ~~~~I~l~G~~GsGKSTia~~La~~L~~  398 (546)
T 2gks_A          371 QGFCVWLTGLPCAGKSTIAEILATMLQA  398 (546)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             cceEEEccCCCCCCHHHHHHHHHHHhhh
Confidence            3578999999999999999999987654

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=87.54  E-value=0.25  Score=50.04  Aligned_cols=25  Identities=28%  Similarity=0.449  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4579999999999999999998753

>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=87.53  E-value=0.17  Score=50.89  Aligned_cols=26  Identities=19%  Similarity=0.276  Sum_probs=22.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ....|+|.|..|+||||+|+.+++.+
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~l   48 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQLC   48 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhc
Confidence            45789999999999999999887765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=87.53  E-value=0.25  Score=46.16  Aligned_cols=24  Identities=21%  Similarity=0.321  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...|+|.|.+|+|||||...+...
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            357899999999999999999863

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=87.51  E-value=0.38  Score=47.13  Aligned_cols=28  Identities=25%  Similarity=0.372  Sum_probs=25.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ....|.|.|+.|+||||+++.+.+.+..
T Consensus        20 ~~~~i~~~G~~g~GKst~~~~l~~~l~~   47 (223)
T 3ld9_A           20 GSMFITFEGIDGSGKTTQSHLLAEYLSE   47 (223)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            4678999999999999999999998765

>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=87.43  E-value=1.4  Score=58.18  Aligned_cols=143  Identities=12%  Similarity=0.048  Sum_probs=0.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHH--
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRL--  283 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L--  283 (709)
                      +-+.++|++|+|||++|+.+.... ..+....+-......+..                          ....+...+  
T Consensus      1268 ~~vLL~GPpGtGKT~la~~~l~~~-~~~~~~~infsa~ts~~~--------------------------~~~~i~~~~~~ 1320 (2695)
T 4akg_A         1268 RGIILCGPPGSGKTMIMNNALRNS-SLYDVVGINFSKDTTTEH--------------------------ILSALHRHTNY 1320 (2695)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSC-SSCEEEEEECCTTCCHHH--------------------------HHHHHHHHBCC
T ss_pred             CeEEEECCCCCCHHHHHHHHHhcC-CCCceEEEEeecCCCHHH--------------------------HHHHHHHHhhh


Q ss_pred             -------------ccCceEEEecCCCChh--------hhhhhhcCCCCCC------------CCeEEEEEcCchh-----
Q 005191          284 -------------QRMKVFIVLDDVNKYG--------QLEYFDGGLDRFG------------PGSRIIVTTRDKT-----  325 (709)
Q Consensus       284 -------------~~kr~LLVLDdv~~~~--------~~~~l~~~l~~~~------------~gsrIIvTTR~~~-----  325 (709)
                                   .++++++.+||++-..        ..+.+...+...+            .+..+|.++-...     
T Consensus      1321 ~~~~~g~~~~P~~~gk~~VlFiDEinmp~~d~yg~q~~lelLRq~le~gg~yd~~~~~~~~~~~i~lIaA~Npp~~gGR~ 1400 (2695)
T 4akg_A         1321 VTTSKGLTLLPKSDIKNLVLFCDEINLPKLDKYGSQNVVLFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRI 1400 (2695)
T ss_dssp             EEETTTEEEEEBSSSSCEEEEEETTTCSCCCSSSCCHHHHHHHHHHHTSSEECTTTCCEEEEESEEEEEEECCTTSTTCC
T ss_pred             ccccCCccccCCCCCceEEEEecccccccccccCchhHHHHHHHHHhcCCEEEcCCCcEEEecCEEEEEecCCCccCCCc


Q ss_pred             --hhhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHh
Q 005191          326 --ILERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYA  375 (709)
Q Consensus       326 --v~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~  375 (709)
                        -..-.....++.++..+.++-.++|.....+.-...+.....+..++..+
T Consensus      1401 ~l~~rllRrf~vi~i~~P~~~~l~~I~~~il~~~l~~~~~v~~~~~~lv~at 1452 (2695)
T 4akg_A         1401 PMSERFTRHAAILYLGYPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARAS 1452 (2695)
T ss_dssp             CCCHHHHTTEEEEECCCCTTTHHHHHHHHHHHHHTTSSGGGGGGHHHHHHHH
T ss_pred             cCChhhhheeeEEEeCCCCHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHH

>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=87.42  E-value=0.41  Score=44.71  Aligned_cols=25  Identities=20%  Similarity=0.276  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
T Consensus        15 ~~~ki~ivG~~~vGKSsL~~~l~~~   39 (181)
T 1fzq_A           15 QEVRILLLGLDNAGKTTLLKQLASE   39 (181)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999988754

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=87.41  E-value=0.3  Score=48.03  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=21.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      -.++|.|++|+||||+|+.+++++
T Consensus         9 ~~~~~~G~pGsGKsT~a~~L~~~~   32 (230)
T 3gmt_A            9 MRLILLGAPGAGKGTQANFIKEKF   32 (230)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             cceeeECCCCCCHHHHHHHHHHHh
Confidence            457999999999999999998865

>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=87.36  E-value=0.21  Score=48.74  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        34 ~Ge~~~iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           34 KGNVVNFHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3468999999999999999998763

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=87.35  E-value=0.32  Score=45.72  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|+|.+|+|||||...+...
T Consensus        47 ~~~~i~vvG~~g~GKSsll~~l~~~   71 (193)
T 2ged_A           47 YQPSIIIAGPQNSGKTSLLTLLTTD   71 (193)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            3567899999999999999998764

>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=87.29  E-value=0.29  Score=45.84  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||+..+...
T Consensus        22 ~ki~vvG~~~~GKSsli~~l~~~   44 (190)
T 3con_A           22 YKLVVVGAGGVGKSALTIQLIQN   44 (190)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            46789999999999999999864

>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=87.28  E-value=3.4  Score=40.52  Aligned_cols=38  Identities=21%  Similarity=0.110  Sum_probs=26.8

Q ss_pred             cchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          187 LESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       187 R~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |+.+.+.+..++..    . -+.|+|+.|.|||.+|..++...
T Consensus        95 ~~~Q~~ai~~~~~~----~-~~ll~~~tG~GKT~~a~~~~~~~  132 (237)
T 2fz4_A           95 RDYQEKALERWLVD----K-RGCIVLPTGSGKTHVAMAAINEL  132 (237)
T ss_dssp             CHHHHHHHHHHTTT----S-EEEEEESSSTTHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHhC----C-CEEEEeCCCCCHHHHHHHHHHHc
Confidence            44455555555542    1 27789999999999999887764

>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=87.20  E-value=0.34  Score=46.30  Aligned_cols=24  Identities=21%  Similarity=0.174  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456789999999999999988863

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=87.18  E-value=0.27  Score=49.63  Aligned_cols=24  Identities=25%  Similarity=0.311  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        32 ~Ge~~~liG~nGsGKSTLl~~i~G   55 (266)
T 2yz2_A           32 EGECLLVAGNTGSGKSTLLQIVAG   55 (266)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            457999999999999999999875

>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=87.18  E-value=0.31  Score=44.15  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
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            35789999999999999988763

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=87.15  E-value=0.57  Score=49.25  Aligned_cols=29  Identities=24%  Similarity=0.269  Sum_probs=24.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +..+|+|+|.+|+|||||...+.......
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~~~~~~  101 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGKMLTER  101 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhhhc
Confidence            47899999999999999999998765443

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=87.08  E-value=0.55  Score=50.70  Aligned_cols=29  Identities=34%  Similarity=0.348  Sum_probs=25.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ...+++|+|++|+||||++..++..+...
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~  125 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGK  125 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            45789999999999999999999877654

>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=87.07  E-value=0.24  Score=46.68  Aligned_cols=25  Identities=16%  Similarity=0.405  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +...|+|.|.+|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 1svi_A           22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4677899999999999999998763

>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=87.04  E-value=0.38  Score=44.10  Aligned_cols=23  Identities=30%  Similarity=0.452  Sum_probs=20.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .--|+|.|.+|+|||||...+..
T Consensus         4 ~~ki~i~G~~~vGKSsl~~~l~~   26 (175)
T 2nzj_A            4 LYRVVLLGDPGVGKTSLASLFAG   26 (175)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEEEECCCCccHHHHHHHHhc
Confidence            35688999999999999998875

>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=87.03  E-value=0.53  Score=51.62  Aligned_cols=30  Identities=20%  Similarity=0.094  Sum_probs=24.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ...+|.++|++|+||||+++.+++.+...|
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~~   67 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFIG   67 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhccC
Confidence            346889999999999999999998765444

>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=86.97  E-value=0.27  Score=49.18  Aligned_cols=26  Identities=19%  Similarity=0.271  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++|.|+.|.|||||.+.++--+
T Consensus        25 ~Ge~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           25 AGEILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            34689999999999999999987644

>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=86.95  E-value=0.32  Score=44.37  Aligned_cols=24  Identities=25%  Similarity=0.255  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus         6 ~~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1z08_A            6 SFKVVLLGEGCVGKTSLVLRYCEN   29 (170)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999998864

>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=86.94  E-value=0.32  Score=44.15  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=19.6

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|+|.|.+|+|||||...+...
T Consensus         5 ki~v~G~~~~GKssli~~l~~~   26 (167)
T 1c1y_A            5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHcC
Confidence            5789999999999999998863

>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=86.93  E-value=0.34  Score=50.26  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|+|+.|.|||||.+.+...
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~   27 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNE   27 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhh
Confidence            4679999999999999999998865

>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=86.93  E-value=0.34  Score=43.97  Aligned_cols=21  Identities=29%  Similarity=0.227  Sum_probs=18.9

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |+|.|.+|+|||||...+...
T Consensus         3 i~~~G~~~~GKssl~~~l~~~   23 (164)
T 1r8s_A            3 ILMVGLDAAGKTTILYKLKLG   23 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            789999999999999998764

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=86.91  E-value=0.31  Score=49.26  Aligned_cols=22  Identities=27%  Similarity=0.597  Sum_probs=20.0

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .++|+|+.|+|||||.+.++..
T Consensus         4 ~v~lvG~nGaGKSTLln~L~g~   25 (270)
T 3sop_A            4 NIMVVGQSGLGKSTLVNTLFKS   25 (270)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            5789999999999999999874

>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=86.82  E-value=0.29  Score=52.73  Aligned_cols=24  Identities=25%  Similarity=0.320  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|.|+.|+|||||.+.+..
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~G   91 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRG   91 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhC
Confidence            557999999999999999999987

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=86.77  E-value=0.28  Score=49.13  Aligned_cols=25  Identities=20%  Similarity=0.474  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl   54 (253)
T 2nq2_C           30 KGDILAVLGQNGCGKSTLLDLLLGI   54 (253)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3468999999999999999998764

>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=86.76  E-value=0.34  Score=44.13  Aligned_cols=22  Identities=18%  Similarity=0.297  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|+|.|.+|+|||||...+...
T Consensus         5 ~i~v~G~~~~GKssli~~l~~~   26 (170)
T 1ek0_A            5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999998864

>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=86.76  E-value=0.32  Score=44.43  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=19.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|+|.|.+|+|||||...+..
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            3578999999999999998864

>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=86.74  E-value=0.33  Score=45.38  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456789999999999999998874

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=86.69  E-value=0.31  Score=44.51  Aligned_cols=22  Identities=27%  Similarity=0.593  Sum_probs=19.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|+|.|.+|+|||||...+..
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            3578999999999999999886

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=86.65  E-value=0.36  Score=44.52  Aligned_cols=24  Identities=29%  Similarity=0.303  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....|+|.|.+|+|||||...+..
T Consensus         7 ~~~~i~v~G~~~~GKssl~~~l~~   30 (178)
T 2lkc_A            7 RPPVVTIMGHVDHGKTTLLDAIRH   30 (178)
T ss_dssp             CCCEEEEESCTTTTHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhC
Confidence            456788999999999999999876

>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=86.65  E-value=0.31  Score=44.39  Aligned_cols=21  Identities=29%  Similarity=0.438  Sum_probs=18.4

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|+|.|.+|+|||||...+..
T Consensus         4 ki~~vG~~~~GKSsli~~l~~   24 (166)
T 3q72_A            4 KVLLLGAPGVGKSALARIFGG   24 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHcC
Confidence            478999999999999998854

>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA replication, MCM complex, AAA+ Pro ATP-binding, DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}

Probab=86.64  E-value=0.19  Score=57.02  Aligned_cols=49  Identities=18%  Similarity=0.129  Sum_probs=34.6

Q ss_pred             CCCccccchhhhHHHhhhhccCC---------CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          181 SDGLIGLESHVEQVRSLLAIGLP---------DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~~~~~---------~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.++|.+...+.+...+..+..         +..-+.++|++|+|||+||+.+++..
T Consensus       294 ~~~I~G~e~vk~al~~~l~~g~~~~~~~~~~r~~~~vLL~GppGtGKT~LAr~la~~~  351 (595)
T 3f9v_A          294 APSIYGHWELKEALALALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA  351 (595)
T ss_dssp             SSTTSCCHHHHHHHTTTTTCCCCEETTTTEECCSCCEEEEESSCCTHHHHHHSSSTTC
T ss_pred             cchhcChHHHHHHHHHHHhCCCcccccCCCcCCCcceEEECCCchHHHHHHHHHHHhC
Confidence            35689998776666555543310         01158899999999999999988754

>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=86.63  E-value=0.34  Score=44.12  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKSsli~~l~~~   29 (170)
T 1z0j_A            7 LKVCLLGDTGVGKSSIMWRFVED   29 (170)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEECcCCCCHHHHHHHHHcC
Confidence            45789999999999999998874

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=86.61  E-value=0.28  Score=49.89  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        46 ~Ge~~~liG~NGsGKSTLlk~l~Gl   70 (279)
T 2ihy_A           46 KGDKWILYGLNGAGKTTLLNILNAY   70 (279)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3568999999999999999988763

>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=86.60  E-value=0.47  Score=42.95  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus         4 ~~~i~v~G~~~~GKssl~~~l~~~   27 (168)
T 1u8z_A            4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            346889999999999999998864

>3fkq_A NTRC-like two-domain protein; RER070207001320, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI-2; HET: ATP 2PE; 2.10A {Eubacterium rectale}

Probab=86.55  E-value=0.63  Score=49.37  Aligned_cols=38  Identities=16%  Similarity=0.250  Sum_probs=28.4

Q ss_pred             CCceEEEEE-ccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIW-GMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~-G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .+.++|+|+ |-||+||||+|..++..+...-..+..+.
T Consensus       141 ~~~kvIav~s~KGGvGKTT~a~nLA~~La~~g~rVlliD  179 (373)
T 3fkq_A          141 DKSSVVIFTSPCGGVGTSTVAAACAIAHANMGKKVFYLN  179 (373)
T ss_dssp             TSCEEEEEECSSTTSSHHHHHHHHHHHHHHHTCCEEEEE
T ss_pred             CCceEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEE
Confidence            356888887 59999999999999988766533444444

>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase; 1.90A {Tomato mosaic virus}

Probab=86.49  E-value=1.4  Score=47.65  Aligned_cols=25  Identities=28%  Similarity=0.267  Sum_probs=22.0

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...++..|.|.+|.||||+..+.++
T Consensus       159 ~~~~v~~I~G~aGsGKTt~I~~~~~  183 (446)
T 3vkw_A          159 SSAKVVLVDGVPGCGKTKEILSRVN  183 (446)
T ss_dssp             CCSEEEEEEECTTSCHHHHHHHHCC
T ss_pred             ccccEEEEEcCCCCCHHHHHHHHhc
Confidence            4578999999999999999988764

>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=86.43  E-value=0.4  Score=46.13  Aligned_cols=25  Identities=20%  Similarity=0.143  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|.|.|.+|+|||||...+...
T Consensus        11 ~~~~i~~~G~~g~GKTsl~~~l~~~   35 (218)
T 1nrj_B           11 YQPSIIIAGPQNSGKTSLLTLLTTD   35 (218)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999998874

>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=86.42  E-value=0.34  Score=44.98  Aligned_cols=23  Identities=22%  Similarity=0.232  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..|+|+|.+|+|||||...+...
T Consensus         5 ~ki~ivG~~g~GKStLl~~l~~~   27 (172)
T 2gj8_A            5 MKVVIAGRPNAGKSSLLNALAGR   27 (172)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhCC
Confidence            46789999999999999999864

>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=86.42  E-value=0.35  Score=45.39  Aligned_cols=24  Identities=25%  Similarity=0.219  Sum_probs=20.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        20 ~~ki~ivG~~~vGKSsL~~~~~~~   43 (184)
T 3ihw_A           20 ELKVGIVGNLSSGKSALVHRYLTG   43 (184)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            346789999999999999888763

>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=86.42  E-value=0.36  Score=44.01  Aligned_cols=23  Identities=17%  Similarity=0.273  Sum_probs=20.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
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            45789999999999999998763

>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=86.41  E-value=0.36  Score=44.60  Aligned_cols=25  Identities=32%  Similarity=0.442  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
T Consensus         7 ~~~~i~v~G~~~~GKSsli~~l~~~   31 (182)
T 1ky3_A            7 NILKVIILGDSGVGKTSLMHRYVND   31 (182)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhC
Confidence            3567889999999999999988764

>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=86.35  E-value=0.36  Score=44.44  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKSsli~~l~~~   30 (177)
T 1wms_A            7 LFKVILLGDGGVGKSSLMNRYVTN   30 (177)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998763

>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=86.32  E-value=0.37  Score=45.09  Aligned_cols=24  Identities=25%  Similarity=0.459  Sum_probs=20.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.+|+|+.|.|||||+..++.-+
T Consensus        27 g~~~i~G~NGsGKStll~ai~~~l   50 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILFVL   50 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHH
Confidence            388999999999999999987643

>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP; 1.80A {Debaryomyces hansenii}

Probab=86.30  E-value=0.64  Score=48.84  Aligned_cols=38  Identities=29%  Similarity=0.399  Sum_probs=28.8

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhh--hcccceEEEe
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFS--QKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~--~~f~~~~~v~  240 (709)
                      +..+++.+.|-||+||||+|..++..+.  ..-..+..+.
T Consensus        16 ~~~~i~~~~gkGGvGKTt~a~~lA~~la~~~~g~~vllid   55 (348)
T 3io3_A           16 DSLKWIFVGGKGGVGKTTTSSSVAVQLALAQPNEQFLLIS   55 (348)
T ss_dssp             TTCSEEEEECSTTSSHHHHHHHHHHHHHHHCTTSCEEEEE
T ss_pred             CCcEEEEEeCCCCCcHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            3468999999999999999999998877  4433334443

>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=86.20  E-value=0.37  Score=43.80  Aligned_cols=23  Identities=13%  Similarity=0.193  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
T Consensus         7 ~~i~v~G~~~~GKssli~~l~~~   29 (170)
T 1r2q_A            7 FKLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999998863

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=86.14  E-value=1.4  Score=54.82  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|+.|.|||||++.+...
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~~  467 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLRY  467 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTTS
T ss_pred             CCcEEEEEecCCCcHHHHHHHhccc
Confidence            3569999999999999999988763

>3iqw_A Tail-anchored protein targeting factor GET3; ATPase, Zn binding, protein transport; HET: ANP; 3.00A {Chaetomium thermophilum} PDB: 3iqx_A* 3ibg_A*

Probab=86.10  E-value=0.65  Score=48.51  Aligned_cols=37  Identities=24%  Similarity=0.372  Sum_probs=29.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+++.+.|-||+||||+|..++..+...-..+..+.
T Consensus        15 ~~~i~~~sgkGGvGKTt~a~~lA~~la~~g~~vllid   51 (334)
T 3iqw_A           15 SLRWIFVGGKGGVGKTTTSCSLAIQLAKVRRSVLLLS   51 (334)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHHTTSSSCEEEEE
T ss_pred             CeEEEEEeCCCCccHHHHHHHHHHHHHhCCCcEEEEE
Confidence            4678889999999999999999988776544444444

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=86.05  E-value=0.37  Score=44.39  Aligned_cols=24  Identities=21%  Similarity=0.302  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            346789999999999999998763

>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=86.02  E-value=0.4  Score=44.96  Aligned_cols=27  Identities=22%  Similarity=0.251  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .--|+|.|.+|+|||||.+.+......
T Consensus        14 ~~ki~vvG~~~~GKssL~~~l~~~~~~   40 (198)
T 3t1o_A           14 NFKIVYYGPGLSGKTTNLKWIYSKVPE   40 (198)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHTSCG
T ss_pred             ccEEEEECCCCCCHHHHHHHHHhhccc
Confidence            456789999999999999766654433

>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=86.00  E-value=0.32  Score=44.98  Aligned_cols=23  Identities=17%  Similarity=0.302  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
T Consensus         8 ~ki~~vG~~~vGKTsli~~l~~~   30 (178)
T 2iwr_A            8 LRLGVLGDARSGKSSLIHRFLTG   30 (178)
T ss_dssp             EEEEEECCGGGCHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            45789999999999999998874

>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=85.96  E-value=0.38  Score=45.19  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        21 ~~ki~vvG~~~vGKTsLi~~l~~~   44 (187)
T 3c5c_A           21 EVNLAILGRRGAGKSALTVKFLTK   44 (187)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCcHHHHHHHHHhC
Confidence            346789999999999999988764

>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=85.92  E-value=0.39  Score=50.60  Aligned_cols=25  Identities=28%  Similarity=0.302  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        29 ~Ge~~~llGpsGsGKSTLLr~iaGl   53 (359)
T 3fvq_A           29 PGEILFIIGASGCGKTTLLRCLAGF   53 (359)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcC
Confidence            4579999999999999999988764

>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=85.90  E-value=0.48  Score=53.69  Aligned_cols=27  Identities=26%  Similarity=0.260  Sum_probs=24.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...+|.|.|++|+||||+|+.+.+++.
T Consensus        51 ~g~lIvLtGlsGSGKSTlAr~La~~L~   77 (630)
T 1x6v_B           51 RGCTVWLTGLSGAGKTTVSMALEEYLV   77 (630)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            467899999999999999999998864

>3vr4_D V-type sodium ATPase subunit D; V-ATPase, rotary motor, P-loop, hydrolas ATPase, ATP binding; HET: MSE B3P; 2.17A {Enterococcus hirae} PDB: 3vr3_D* 3vr2_D* 3vr5_D 3vr6_D*

Probab=85.89  E-value=0.43  Score=51.64  Aligned_cols=89  Identities=10%  Similarity=0.079  Sum_probs=48.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhccc---ceEEEeeecccccccCCHHHHHHHHHHHh--cCCC--CCCCCCC-hh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFE---GKYFMANVREESEKCGGLVHLRNQVLSKL--LGEN--FDIGTPK-IP  276 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~---~~~~v~~~~~~~~~~~~l~~l~~~ll~~l--~~~~--~~~~~~~-~~  276 (709)
                      .+.++|.|.+|+|||+|+.++++....+.+   ..+.+..+++..   ....++.+.+...-  ....  ....+.. ..
T Consensus       151 GQr~~Ifgg~G~GKt~L~~~Ia~~~~~~~d~~~~~~V~~~iGeR~---~Ev~e~~~~~~~~g~~~rtvvV~atsd~p~~~  227 (465)
T 3vr4_D          151 GQKLPVFSGSGLPHKELAAQIARQATVLDSSDDFAVVFAAIGITF---EEAEFFMEDFRQTGAIDRSVMFMNLANDPAIE  227 (465)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBCSSCSSCEEEEEEEEEECH---HHHHHHHHHHHHHTGGGGEEEEEEETTSCHHH
T ss_pred             CCEEEEeCCCCcChHHHHHHHHHHHHhccCCCceEEEEEEecCCc---HHHHHHHHHHhhcCCccceEEEEECCCCCHHH
Confidence            345789999999999999999887554222   233333344332   23445555544321  0000  0111111 11


Q ss_pred             --------HHHHHHHc---cCceEEEecCCC
Q 005191          277 --------QYIRDRLQ---RMKVFIVLDDVN  296 (709)
Q Consensus       277 --------~~l~~~L~---~kr~LLVLDdv~  296 (709)
                              -.+.++++   ++.+||++||+-
T Consensus       228 r~~a~~~a~tiAEyfrd~~G~~VLl~~DslT  258 (465)
T 3vr4_D          228 RIATPRMALTAAEYLAYEKGMHVLVIMTDMT  258 (465)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCeEEEEEcChH
Confidence                    12344443   689999999993

>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=85.84  E-value=0.51  Score=43.44  Aligned_cols=25  Identities=20%  Similarity=0.413  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
T Consensus         8 ~~~~i~v~G~~~~GKssli~~l~~~   32 (181)
T 2fn4_A            8 ETHKLVVVGGGGVGKSALTIQFIQS   32 (181)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhC
Confidence            4567889999999999999998874

>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=85.82  E-value=0.39  Score=45.31  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..|+|.|.+|+|||||...+...
T Consensus        24 ~ki~~vG~~~vGKSsli~~l~~~   46 (190)
T 1m2o_B           24 GKLLFLGLDNAGKTTLLHMLKND   46 (190)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcC
Confidence            46789999999999999998863

>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=85.78  E-value=0.51  Score=48.53  Aligned_cols=31  Identities=19%  Similarity=0.331  Sum_probs=24.7

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHH
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~  226 (709)
                      +++|.+.+.     ..+++|.|++|+|||||.+.+.
T Consensus       156 i~~L~~~l~-----G~i~~l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          156 IDELVDYLE-----GFICILAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             HHHHHHHTT-----TCEEEEECSTTSSHHHHHHHHH
T ss_pred             HHHHHhhcc-----CcEEEEECCCCCCHHHHHHHHH
Confidence            455555554     3588999999999999999988

>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=85.77  E-value=0.4  Score=44.08  Aligned_cols=24  Identities=21%  Similarity=0.196  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus        15 ~~~i~v~G~~~~GKSsli~~l~~~   38 (179)
T 1z0f_A           15 IFKYIIIGDMGVGKSCLLHQFTEK   38 (179)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            467889999999999999999864

>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=85.77  E-value=0.4  Score=43.74  Aligned_cols=24  Identities=33%  Similarity=0.267  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus         7 ~~~i~v~G~~~~GKssl~~~l~~~   30 (171)
T 1upt_A            7 EMRILILGLDGAGKTTILYRLQVG   30 (171)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999998763

>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=85.71  E-value=0.4  Score=45.40  Aligned_cols=22  Identities=32%  Similarity=0.472  Sum_probs=19.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|+|+|.+|+|||||...+..
T Consensus         7 ~kv~lvG~~~vGKSsL~~~~~~   28 (192)
T 2cjw_A            7 YRVVLIGEQGVGKSTLANIFAG   28 (192)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4688999999999999999875

>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=85.68  E-value=0.29  Score=50.48  Aligned_cols=24  Identities=29%  Similarity=0.495  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|+|+.|.|||||++.+..
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~g  102 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFR  102 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTT
T ss_pred             CCCEEEEECCCCchHHHHHHHHHc
Confidence            457999999999999999998865

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=85.59  E-value=0.47  Score=44.39  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|.|.+|+|||||...+...
T Consensus        22 ~~~~i~v~G~~~~GKSsli~~l~~~   46 (195)
T 3pqc_A           22 LKGEVAFVGRSNVGKSSLLNALFNR   46 (195)
T ss_dssp             TTCEEEEEEBTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcC
Confidence            3457889999999999999998764

>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=85.56  E-value=0.41  Score=44.66  Aligned_cols=24  Identities=21%  Similarity=0.187  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        11 ~~ki~v~G~~~~GKSsli~~l~~~   34 (195)
T 3bc1_A           11 LIKFLALGDSGVGKTSVLYQYTDG   34 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            457889999999999999998863

>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=85.54  E-value=0.39  Score=44.76  Aligned_cols=22  Identities=18%  Similarity=0.226  Sum_probs=19.4

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|+|.|.+|+|||||...+...
T Consensus         3 ki~v~G~~~~GKSsli~~l~~~   24 (190)
T 2cxx_A            3 TIIFAGRSNVGKSTLIYRLTGK   24 (190)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            4789999999999999998763

>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=85.49  E-value=0.42  Score=44.47  Aligned_cols=23  Identities=17%  Similarity=0.354  Sum_probs=20.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
T Consensus         5 ~ki~v~G~~~~GKSsli~~l~~~   27 (189)
T 4dsu_A            5 YKLVVVGADGVGKSALTIQLIQN   27 (189)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHhC
Confidence            35789999999999999999864

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=85.42  E-value=0.64  Score=46.56  Aligned_cols=25  Identities=24%  Similarity=0.504  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|.|.+|+|||||...+...
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~   59 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGE   59 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4567899999999999999998864

>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=85.38  E-value=0.43  Score=44.32  Aligned_cols=24  Identities=25%  Similarity=0.468  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456789999999999999998864

>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=85.34  E-value=0.43  Score=43.86  Aligned_cols=22  Identities=18%  Similarity=0.208  Sum_probs=19.5

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|+|.|.+|+|||||...+..
T Consensus        15 ~~i~v~G~~~~GKssli~~l~~   36 (179)
T 2y8e_A           15 FKLVFLGEQSVGKTSLITRFMY   36 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHc
Confidence            4578899999999999999875

>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=85.29  E-value=0.38  Score=49.19  Aligned_cols=25  Identities=24%  Similarity=0.453  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++.-
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcC
Confidence            4579999999999999999998764

>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=85.27  E-value=0.44  Score=44.22  Aligned_cols=23  Identities=22%  Similarity=0.180  Sum_probs=19.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
T Consensus         6 ~~i~~~G~~~~GKssl~~~l~~~   28 (186)
T 1mh1_A            6 IKCVVVGDGAVGKTCLLISYTTN   28 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHcC
Confidence            45789999999999999988763

>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=85.25  E-value=0.43  Score=44.35  Aligned_cols=24  Identities=17%  Similarity=0.243  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        10 ~~ki~v~G~~~~GKSsli~~l~~~   33 (186)
T 2bme_A           10 LFKFLVIGNAGTGKSCLLHQFIEK   33 (186)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            456889999999999999998864

>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=85.25  E-value=0.44  Score=50.36  Aligned_cols=26  Identities=23%  Similarity=0.362  Sum_probs=22.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ...++|+|+.|.|||||++.++..+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            57899999999999999999887643

>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=85.13  E-value=0.44  Score=44.77  Aligned_cols=24  Identities=29%  Similarity=0.357  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        25 ~~ki~v~G~~~~GKSsLi~~l~~~   48 (193)
T 2oil_A           25 VFKVVLIGESGVGKTNLLSRFTRN   48 (193)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            456889999999999999998873

>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure initiative, midwest CENT structural genomics, MCSG; 2.79A {Clostridium symbiosum atcc 14940}

Probab=85.11  E-value=0.52  Score=46.17  Aligned_cols=26  Identities=12%  Similarity=0.104  Sum_probs=23.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..+|+|.|+.|+||||+|+.+++++.
T Consensus        14 ~~iI~i~g~~gsGk~~i~~~la~~lg   39 (223)
T 3hdt_A           14 NLIITIEREYGSGGRIVGKKLAEELG   39 (223)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHHHT
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998763

>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=85.09  E-value=0.45  Score=44.00  Aligned_cols=23  Identities=22%  Similarity=0.133  Sum_probs=19.8

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      --|+|.|.+|+|||||...+...
T Consensus         9 ~ki~v~G~~~~GKssl~~~~~~~   31 (182)
T 3bwd_D            9 IKCVTVGDGAVGKTCLLISYTSN   31 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHhcC
Confidence            45789999999999999988763

>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=85.00  E-value=0.46  Score=44.06  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
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            456889999999999999998863

>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=84.98  E-value=0.46  Score=44.03  Aligned_cols=23  Identities=22%  Similarity=0.417  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..-|+|.|.+|+|||||...+..
T Consensus         6 ~~ki~~~G~~~~GKSsli~~l~~   28 (181)
T 3t5g_A            6 SRKIAILGYRSVGKSSLTIQFVE   28 (181)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEEECcCCCCHHHHHHHHHc
Confidence            45788999999999999999885

>3tmk_A Thymidylate kinase; phosphotransferase; HET: T5A; 2.00A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 2tmk_A* 1tmk_A*

Probab=84.98  E-value=0.56  Score=45.72  Aligned_cols=27  Identities=26%  Similarity=0.468  Sum_probs=24.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...|.+.|+.|+||||+++.+.+.+..
T Consensus         5 g~~i~~eG~~g~GKst~~~~l~~~l~~   31 (216)
T 3tmk_A            5 GKLILIEGLDRTGKTTQCNILYKKLQP   31 (216)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHHHHCS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcc
Confidence            468999999999999999999998765

>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=84.95  E-value=0.47  Score=50.10  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.+.-
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~G   76 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNL   76 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhc
Confidence            457999999999999999998875

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=84.95  E-value=0.69  Score=46.52  Aligned_cols=25  Identities=20%  Similarity=0.506  Sum_probs=21.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|++.|.+|+|||||...+...
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~   62 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGE   62 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998864

>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=84.94  E-value=0.46  Score=43.86  Aligned_cols=24  Identities=17%  Similarity=0.183  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus        12 ~~ki~v~G~~~~GKSsli~~l~~~   35 (181)
T 2efe_B           12 NAKLVLLGDVGAGKSSLVLRFVKD   35 (181)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            346889999999999999998864

>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=84.91  E-value=0.35  Score=45.95  Aligned_cols=23  Identities=35%  Similarity=0.482  Sum_probs=19.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~  226 (709)
                      ..--|+|.|.+|+|||||...+.
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            34678899999999999999885

>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=84.86  E-value=0.4  Score=45.65  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..-|+|.|.+|+|||||...+..
T Consensus        25 ~~ki~lvG~~~vGKSsLi~~l~~   47 (198)
T 1f6b_A           25 TGKLVFLGLDNAGKTTLLHMLKD   47 (198)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CcEEEEECCCCCCHHHHHHHHhc
Confidence            34578999999999999998864

>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=84.82  E-value=0.46  Score=44.84  Aligned_cols=24  Identities=21%  Similarity=0.454  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456889999999999999998864

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=84.82  E-value=0.48  Score=43.61  Aligned_cols=24  Identities=21%  Similarity=0.254  Sum_probs=20.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..--|+|.|.+|+|||||...+..
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            356788999999999999998865

>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=84.78  E-value=0.49  Score=44.47  Aligned_cols=24  Identities=21%  Similarity=0.145  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        23 ~~ki~v~G~~~~GKSsli~~l~~~   46 (191)
T 3dz8_A           23 MFKLLIIGNSSVGKTSFLFRYADD   46 (191)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             eeEEEEECCCCcCHHHHHHHHhcC
Confidence            346789999999999999998874

>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=84.78  E-value=0.47  Score=43.74  Aligned_cols=24  Identities=25%  Similarity=0.206  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        10 ~~~i~v~G~~~~GKssli~~l~~~   33 (180)
T 2g6b_A           10 AFKVMLVGDSGVGKTCLLVRFKDG   33 (180)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            456889999999999999998763

>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=84.77  E-value=0.48  Score=49.98  Aligned_cols=25  Identities=32%  Similarity=0.376  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           28 DGEFVALLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHCC
Confidence            4578999999999999999988764

>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=84.73  E-value=0.48  Score=50.31  Aligned_cols=25  Identities=24%  Similarity=0.348  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        28 ~Ge~~~llGpsGsGKSTLLr~iaGl   52 (381)
T 3rlf_A           28 EGEFVVFVGPSGCGKSTLLRMIAGL   52 (381)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEEcCCCchHHHHHHHHHcC
Confidence            4578999999999999999988764

>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB: 3ez6_A* 3ez7_A

Probab=84.71  E-value=1.2  Score=47.48  Aligned_cols=29  Identities=17%  Similarity=0.170  Sum_probs=23.8

Q ss_pred             CCceEEEEE-ccCCCchhHHHHHHHHHhhh
Q 005191          203 PDVRLVGIW-GMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       203 ~~~~vv~I~-G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ...++|+|+ |-||+||||+|..++..+..
T Consensus       106 ~~~~vIav~s~KGGvGKTT~a~nLA~~La~  135 (398)
T 3ez2_A          106 SEAYVIFISNLKGGVSKTVSTVSLAHAMRA  135 (398)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEeCCCCccHHHHHHHHHHHHHh
Confidence            346777776 88999999999999987763

>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine kinase domain, signaling protein, transferase, inner membrane, membrane; 2.50A {Escherichia coli}

Probab=84.71  E-value=1.2  Score=45.66  Aligned_cols=38  Identities=18%  Similarity=0.230  Sum_probs=28.6

Q ss_pred             CCceEEEEEcc-CCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIWGM-GGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~-gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...++|.|+|. ||+||||+|..++..+...-..+..+.
T Consensus       102 ~~~kvI~vts~kgG~GKTtva~nLA~~lA~~G~rVLLID  140 (299)
T 3cio_A          102 TENNILMITGATPDSGKTFVSSTLAAVIAQSDQKVLFID  140 (299)
T ss_dssp             CSCCEEEEEESSSSSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCCCCChHHHHHHHHHHHHhCCCcEEEEE
Confidence            34688999886 899999999999988766533444444

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=84.65  E-value=0.46  Score=50.04  Aligned_cols=25  Identities=36%  Similarity=0.562  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|+|||||.+.++--
T Consensus        40 ~Ge~~~llGpnGsGKSTLLr~iaGl   64 (355)
T 1z47_A           40 EGEMVGLLGPSGSGKTTILRLIAGL   64 (355)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            3568999999999999999988764

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=84.64  E-value=0.49  Score=49.97  Aligned_cols=25  Identities=24%  Similarity=0.376  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (362)
T 2it1_A           28 DGEFMALLGPSGSGKSTLLYTIAGI   52 (362)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcC
Confidence            4578999999999999999988764

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=84.63  E-value=0.48  Score=44.51  Aligned_cols=24  Identities=17%  Similarity=0.199  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus         7 ~~ki~v~G~~~~GKSsli~~l~~~   30 (208)
T 3clv_A            7 SYKTVLLGESSVGKSSIVLRLTKD   30 (208)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456889999999999999999874

>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=84.57  E-value=0.48  Score=44.86  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus        14 ~~ki~v~G~~~~GKSsli~~l~~~   37 (206)
T 2bov_A           14 LHKVIMVGSGGVGKSALTLQFMYD   37 (206)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            457889999999999999998763

>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=84.50  E-value=0.49  Score=44.93  Aligned_cols=25  Identities=32%  Similarity=0.396  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
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            3567889999999999999998764

>2oze_A ORF delta'; para, walker type atpases, DNA segregation, PSM19035, plasmid, DNA binding protein; HET: AGS EPE; 1.83A {Streptococcus pyogenes}

Probab=84.46  E-value=0.64  Score=47.36  Aligned_cols=35  Identities=14%  Similarity=0.184  Sum_probs=24.9

Q ss_pred             ceEEEEEc---cCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          205 VRLVGIWG---MGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       205 ~~vv~I~G---~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      .++++|++   -||+||||+|..++..+...-..+..+
T Consensus        34 ~~~i~v~~~s~KGGvGKTT~a~nLA~~la~~G~rVlli   71 (298)
T 2oze_A           34 NEAIVILNNYFKGGVGKSKLSTMFAYLTDKLNLKVLMI   71 (298)
T ss_dssp             CSCEEEEECCSSSSSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CcEEEEEeccCCCCchHHHHHHHHHHHHHhCCCeEEEE
Confidence            35666665   999999999999998776543333333

>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=84.41  E-value=0.49  Score=45.23  Aligned_cols=24  Identities=21%  Similarity=0.296  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus        26 ~~ki~lvG~~~vGKSsLi~~l~~~   49 (201)
T 2ew1_A           26 LFKIVLIGNAGVGKTCLVRRFTQG   49 (201)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhC
Confidence            457889999999999999998764

>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=84.33  E-value=0.5  Score=45.33  Aligned_cols=24  Identities=21%  Similarity=0.171  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456889999999999999999874

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=84.30  E-value=0.5  Score=44.86  Aligned_cols=25  Identities=32%  Similarity=0.365  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
T Consensus        23 ~~~ki~vvG~~~~GKSsli~~l~~~   47 (201)
T 3oes_A           23 RYRKVVILGYRCVGKTSLAHQFVEG   47 (201)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhC
Confidence            3457889999999999999998874

>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=84.29  E-value=0.34  Score=46.25  Aligned_cols=24  Identities=21%  Similarity=0.173  Sum_probs=20.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|.|.+|+|||||...+..
T Consensus        25 ~~~~v~lvG~~g~GKSTLl~~l~g   48 (210)
T 1pui_A           25 TGIEVAFAGRSNAGKSSALNTLTN   48 (210)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhC
Confidence            456899999999999999988764

>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=84.25  E-value=0.52  Score=49.96  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        36 ~Ge~~~llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           36 DGEFLVLLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHHcC
Confidence            4579999999999999999988764

>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=84.24  E-value=0.51  Score=44.43  Aligned_cols=24  Identities=25%  Similarity=0.338  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        23 ~~ki~vvG~~~~GKSsli~~l~~~   46 (192)
T 2fg5_A           23 ELKVCLLGDTGVGKSSIVCRFVQD   46 (192)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            356889999999999999999864

>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=84.16  E-value=0.51  Score=45.21  Aligned_cols=24  Identities=25%  Similarity=0.205  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...|+|.|.+|+|||||...+...
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            456889999999999999998864

>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=84.13  E-value=0.52  Score=44.18  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        22 ~~ki~v~G~~~~GKSsli~~l~~~   45 (188)
T 1zd9_A           22 EMELTLVGLQYSGKTTFVNVIASG   45 (188)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHcC
Confidence            346789999999999999999863

>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=84.09  E-value=0.52  Score=44.33  Aligned_cols=24  Identities=21%  Similarity=0.225  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        23 ~~ki~~vG~~~~GKSsl~~~l~~~   46 (194)
T 3reg_A           23 ALKIVVVGDGAVGKTCLLLAFSKG   46 (194)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eeEEEEECcCCCCHHHHHHHHhcC
Confidence            456789999999999999998874

>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase, A1AO, ATP synthesis, hydrogen ION transport, ION transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A* 3b2q_A* 2rkw_A* 3eiu_A*

Probab=84.04  E-value=0.69  Score=50.28  Aligned_cols=88  Identities=15%  Similarity=0.098  Sum_probs=48.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcc---cceEEEeeecccccccCCHHHHHHHHHHHhcCCC----CCCCCCCh--
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKF---EGKYFMANVREESEKCGGLVHLRNQVLSKLLGEN----FDIGTPKI--  275 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f---~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~----~~~~~~~~--  275 (709)
                      .+.++|.|.+|+|||+|+..+++....+.   +..+.+..+++..   ....++.+.+...-....    ....+...  
T Consensus       152 GQr~~Ifgg~G~GKt~Ll~~Ia~~~~~n~~~~~~~~V~~~iGER~---~Ev~e~~~~~~~~g~m~rtvvV~~tsd~p~~~  228 (469)
T 2c61_A          152 GQKLPIFSASGLPHNEIALQIARQASVPGSESAFAVVFAAMGITN---EEAQYFMSDFEKTGALERAVVFLNLADDPAVE  228 (469)
T ss_dssp             TCBCCEEECTTSCHHHHHHHHHHHCBCTTCSSCEEEEEEEEEECH---HHHHHHHHHHHHHSGGGGEEEEEEETTSCHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHhhccCCCCcEEEEEEccCCc---HHHHHHHHHHHhccCccceEEEEECCCCCHHH
Confidence            45677889999999999999998754322   1233333344332   234555555544310000    01111111  


Q ss_pred             -------hHHHHHHHc---cCceEEEecCC
Q 005191          276 -------PQYIRDRLQ---RMKVFIVLDDV  295 (709)
Q Consensus       276 -------~~~l~~~L~---~kr~LLVLDdv  295 (709)
                             .-.+.++++   ++.+||++||+
T Consensus       229 r~~~~~~a~tiAEyfrdd~G~dVLl~~Dsl  258 (469)
T 2c61_A          229 RIVTPRMALTAAEYLAYEHGMHVLVILTDI  258 (469)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCCEEEEEEECH
T ss_pred             HHHHHHHHHHHHHHHHHhcCCeEEEEEeCH
Confidence                   112334443   68999999997

>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=84.03  E-value=0.52  Score=44.31  Aligned_cols=23  Identities=26%  Similarity=0.471  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .--|+|.|.+|+|||||...+..
T Consensus         8 ~~ki~vvG~~~~GKSsli~~l~~   30 (199)
T 2gf0_A            8 DYRVVVFGAGGVGKSSLVLRFVK   30 (199)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHHc
Confidence            45688999999999999999876

>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=84.01  E-value=0.44  Score=50.03  Aligned_cols=25  Identities=24%  Similarity=0.228  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        25 ~Ge~~~llGpnGsGKSTLLr~iaGl   49 (348)
T 3d31_A           25 SGEYFVILGPTGAGKTLFLELIAGF   49 (348)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCccHHHHHHHHHcC
Confidence            4568999999999999999988764

>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=83.96  E-value=0.54  Score=44.04  Aligned_cols=24  Identities=17%  Similarity=0.129  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456889999999999999998764

>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=83.89  E-value=0.54  Score=44.16  Aligned_cols=24  Identities=21%  Similarity=0.188  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        21 ~~ki~v~G~~~~GKSsli~~l~~~   44 (191)
T 2a5j_A           21 LFKYIIIGDTGVGKSCLLLQFTDK   44 (191)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcC
Confidence            346789999999999999998763

>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=83.85  E-value=0.51  Score=45.70  Aligned_cols=23  Identities=30%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .--|+|.|.+|+|||||...+..
T Consensus        37 ~~kVvlvG~~~vGKSSLl~r~~~   59 (211)
T 2g3y_A           37 YYRVVLIGEQGVGKSTLANIFAG   59 (211)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHh
Confidence            35688999999999999998874

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=83.81  E-value=0.55  Score=44.06  Aligned_cols=24  Identities=17%  Similarity=0.217  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        16 ~~ki~v~G~~~~GKSsli~~l~~~   39 (196)
T 3tkl_A           16 LFKLLLIGDSGVGKSCLLLRFADD   39 (196)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECcCCCCHHHHHHHHHcC
Confidence            457889999999999999998874

>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=83.81  E-value=0.52  Score=50.00  Aligned_cols=25  Identities=28%  Similarity=0.352  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        28 ~Ge~~~llGpnGsGKSTLLr~iaGl   52 (372)
T 1g29_1           28 DGEFMILLGPSGCGKTTTLRMIAGL   52 (372)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCcHHHHHHHHHHcC
Confidence            3468999999999999999988764

>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=83.68  E-value=0.56  Score=43.91  Aligned_cols=24  Identities=17%  Similarity=0.174  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus        20 ~~ki~v~G~~~~GKSsli~~l~~~   43 (189)
T 1z06_A           20 IFKIIVIGDSNVGKTCLTYRFCAG   43 (189)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcC
Confidence            457889999999999999998763

>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=83.68  E-value=0.55  Score=45.69  Aligned_cols=21  Identities=19%  Similarity=0.268  Sum_probs=18.7

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|.|.|.+|+|||+|...+..
T Consensus        15 KivlvGd~~VGKTsLi~r~~~   35 (216)
T 4dkx_A           15 KLVFLGEQSVGKTSLITRFMY   35 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECcCCcCHHHHHHHHHh
Confidence            477899999999999999876

>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase; chimerical protein, P-loop protein, capsule biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus aureus} PDB: 2ved_A*

Probab=83.67  E-value=1.4  Score=44.31  Aligned_cols=38  Identities=24%  Similarity=0.206  Sum_probs=28.7

Q ss_pred             CCceEEEEEcc-CCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIWGM-GGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~-gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...++|.|+|. ||+||||+|..++..+...-..+..+.
T Consensus        80 ~~~kvI~vts~kgG~GKTt~a~nLA~~lA~~G~rVLLID  118 (271)
T 3bfv_A           80 SAVQSIVITSEAPGAGKSTIAANLAVAYAQAGYKTLIVD  118 (271)
T ss_dssp             CCCCEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCeEEEEECCCCCCcHHHHHHHHHHHHHhCCCeEEEEe
Confidence            35688999865 899999999999988776544445544

>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=83.62  E-value=0.5  Score=44.76  Aligned_cols=24  Identities=21%  Similarity=0.163  Sum_probs=20.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456889999999999999998763

>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=83.55  E-value=0.46  Score=44.99  Aligned_cols=24  Identities=29%  Similarity=0.463  Sum_probs=19.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+.++
T Consensus        20 ~~ki~~vG~~~vGKTsLi~~l~~~   43 (196)
T 3llu_A           20 KPRILLMGLRRSGKSSIQKVVFHK   43 (196)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHSC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhc
Confidence            456789999999999999866654

>1byi_A Dethiobiotin synthase; biotin synthesis, cyclo-ligase, ligase; 0.97A {Escherichia coli} SCOP: c.37.1.10 PDB: 1bs1_A* 1a82_A 1dad_A* 1dae_A* 1daf_A* 1dag_A* 1dah_A* 1dai_A* 1dak_A* 1dam_A* 1dbs_A 1dts_A

Probab=83.52  E-value=1  Score=43.52  Aligned_cols=27  Identities=15%  Similarity=0.135  Sum_probs=22.1

Q ss_pred             eEEEEEc-cCCCchhHHHHHHHHHhhhc
Q 005191          206 RLVGIWG-MGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       206 ~vv~I~G-~gGiGKTtLA~~v~~~~~~~  232 (709)
                      ++|.|.| -||+||||+|..++..+..+
T Consensus         2 k~I~v~s~kgGvGKTt~a~nLa~~la~~   29 (224)
T 1byi_A            2 KRYFVTGTDTEVGKTVASCALLQAAKAA   29 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            4677776 48999999999999877655

>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=83.47  E-value=0.57  Score=44.36  Aligned_cols=25  Identities=12%  Similarity=0.175  Sum_probs=21.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
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            3567889999999999999998763

>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=83.42  E-value=0.5  Score=48.57  Aligned_cols=21  Identities=29%  Similarity=0.523  Sum_probs=18.5

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|+|.|.+|+|||||...++.
T Consensus        20 ~I~lvG~nG~GKSTLl~~L~g   40 (301)
T 2qnr_A           20 TLMVVGESGLGKSTLINSLFL   40 (301)
T ss_dssp             EEEEEEETTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            458999999999999999764

>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=83.42  E-value=0.58  Score=43.77  Aligned_cols=24  Identities=21%  Similarity=0.284  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        15 ~~~i~v~G~~~~GKssli~~l~~~   38 (195)
T 1x3s_A           15 TLKILIIGESGVGKSSLLLRFTDD   38 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcC
Confidence            356889999999999999999864

>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=83.41  E-value=0.99  Score=50.23  Aligned_cols=38  Identities=16%  Similarity=0.185  Sum_probs=27.8

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +...|..+-....+++|.|++|+|||||+..++.....
T Consensus       270 ld~vL~g~i~~G~i~~i~G~~GsGKSTLl~~l~g~~~~  307 (525)
T 1tf7_A          270 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACA  307 (525)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHT
T ss_pred             HHHHhCCCCCCCcEEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            33444332234579999999999999999999886544

>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=83.32  E-value=0.43  Score=44.23  Aligned_cols=24  Identities=33%  Similarity=0.273  Sum_probs=20.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...-|+|.|.+|+|||||...+..
T Consensus        17 ~~~~i~v~G~~~~GKssli~~l~~   40 (183)
T 1moz_A           17 KELRILILGLDGAGKTTILYRLQI   40 (183)
T ss_dssp             SCEEEEEEEETTSSHHHHHHHTCC
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            456788999999999999988764

>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=83.21  E-value=0.42  Score=50.36  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|.|||||.+.++--
T Consensus        30 ~Ge~~~llGpnGsGKSTLLr~iaGl   54 (353)
T 1oxx_K           30 NGERFGILGPSGAGKTTFMRIIAGL   54 (353)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCC
Confidence            4578999999999999999988764

>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=83.16  E-value=0.59  Score=44.42  Aligned_cols=24  Identities=17%  Similarity=0.221  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
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            456889999999999999998763

>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis, ATP-binding, hydrogen ION TRA hydrolase, ION transport; 2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D 3j0j_D*

Probab=83.14  E-value=0.95  Score=48.96  Aligned_cols=26  Identities=19%  Similarity=0.225  Sum_probs=21.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+.++|.|.+|+|||+|+.++++...
T Consensus       147 GQr~~Ifgg~G~GKt~L~~~Ia~~~~  172 (464)
T 3gqb_B          147 GQKLPIFSGSGLPANEIAAQIARQAT  172 (464)
T ss_dssp             TCBCCEEEETTSCHHHHHHHHHHHCB
T ss_pred             CCEEEEecCCCCCchHHHHHHHHHHH
Confidence            45678999999999999999988654

>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=83.09  E-value=0.61  Score=49.75  Aligned_cols=35  Identities=26%  Similarity=0.417  Sum_probs=26.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+++|.|+.|+|||||.+.++--..  ....+++.
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl~~--~~G~I~i~   80 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRLLN--TEGEIQID   80 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTCSE--EEEEEEES
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCC--CCeEEEEC
Confidence            457999999999999999999886432  34455553

>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=83.08  E-value=1  Score=48.58  Aligned_cols=85  Identities=12%  Similarity=0.109  Sum_probs=47.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe-eecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA-NVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDR  282 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~-~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~  282 (709)
                      ...+++|+|+.|.|||||...+...+... ...+++. ..-+...  ...        .+..  ............++..
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~~~-~g~I~~~ed~ie~~~--~~~--------~q~~--v~~~~g~~f~~~lr~~  232 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELNSS-ERNILTVEDPIEFDI--DGI--------GQTQ--VNPRVDMTFARGLRAI  232 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHCCT-TSCEEEEESSCCSCC--SSS--------EEEE--CBGGGTBCHHHHHHHH
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEEecccchhcc--CCc--------ceEE--EccccCcCHHHHHHHH
Confidence            45689999999999999999998876543 3333332 1110000  000        0000  0000011145567777


Q ss_pred             HccCceEEEecCCCChhhh
Q 005191          283 LQRMKVFIVLDDVNKYGQL  301 (709)
Q Consensus       283 L~~kr~LLVLDdv~~~~~~  301 (709)
                      ++..+-++++.++.+....
T Consensus       233 Lrq~pd~i~vgEiRd~et~  251 (418)
T 1p9r_A          233 LRQDPDVVMVGEIRDLETA  251 (418)
T ss_dssp             GGGCCSEEEESCCCSHHHH
T ss_pred             hccCCCeEEEcCcCCHHHH
Confidence            7777888888888765433

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=83.00  E-value=0.63  Score=47.76  Aligned_cols=25  Identities=16%  Similarity=0.320  Sum_probs=21.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|+|.+|+|||||...+...
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~   47 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGR   47 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTS
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCC
Confidence            4678999999999999999998753

>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=82.96  E-value=0.54  Score=43.73  Aligned_cols=24  Identities=33%  Similarity=0.195  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        21 ~~~i~v~G~~~~GKSsli~~l~~~   44 (181)
T 2h17_A           21 EHKVIIVGLDNAGKTTILYQFSMN   44 (181)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHHTT
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999998763

>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=82.84  E-value=0.57  Score=44.24  Aligned_cols=23  Identities=26%  Similarity=0.144  Sum_probs=19.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .--|+|.|.+|+|||||...+..
T Consensus        29 ~~ki~v~G~~~vGKSsLi~~l~~   51 (192)
T 2b6h_A           29 QMRILMVGLDAAGKTTILYKLKL   51 (192)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHCS
T ss_pred             ccEEEEECCCCCCHHHHHHHHHh
Confidence            45688999999999999998864

>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=82.81  E-value=0.6  Score=43.60  Aligned_cols=24  Identities=33%  Similarity=0.198  Sum_probs=21.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...-|+|.|.+|+|||||...+..
T Consensus        15 ~~~~i~v~G~~~~GKssl~~~l~~   38 (187)
T 1zj6_A           15 QEHKVIIVGLDNAGKTTILYQFSM   38 (187)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHHT
T ss_pred             CccEEEEECCCCCCHHHHHHHHhc
Confidence            456788999999999999999885

>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=82.79  E-value=0.63  Score=43.69  Aligned_cols=24  Identities=25%  Similarity=0.259  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        18 ~~ki~v~G~~~~GKssli~~l~~~   41 (194)
T 2atx_A           18 MLKCVVVGDGAVGKTCLLMSYAND   41 (194)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            356889999999999999999864

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=82.79  E-value=0.6  Score=44.13  Aligned_cols=24  Identities=21%  Similarity=0.191  Sum_probs=20.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus        20 ~~ki~~~G~~~~GKssl~~~l~~~   43 (201)
T 2q3h_A           20 GVKCVLVGDGAVGKTSLVVSYTTN   43 (201)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHC-
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            456789999999999999988753

>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=82.78  E-value=0.71  Score=45.34  Aligned_cols=25  Identities=16%  Similarity=0.304  Sum_probs=21.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|+|.+|+|||||...+...
T Consensus        28 ~~~~i~lvG~~g~GKStlin~l~g~   52 (239)
T 3lxx_A           28 SQLRIVLVGKTGAGKSATGNSILGR   52 (239)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CceEEEEECCCCCCHHHHHHHHcCC
Confidence            4567899999999999999998863

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=82.77  E-value=0.63  Score=44.49  Aligned_cols=24  Identities=21%  Similarity=0.138  Sum_probs=20.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
T Consensus         9 ~~ki~i~G~~~~GKTsli~~l~~~   32 (212)
T 2j0v_A            9 FIKCVTVGDGAVGKTCMLICYTSN   32 (212)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcC
Confidence            456889999999999999988763

>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor, endoplasmic reticulum, TRC40, ATP-binding, golgi apparatus; 3.01A {Schizosaccharomyces pombe}

Probab=82.76  E-value=1.2  Score=46.27  Aligned_cols=37  Identities=24%  Similarity=0.356  Sum_probs=27.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+++...|-||+||||+|..++..+...-..+..++
T Consensus        18 ~~~i~v~sgkGGvGKTTva~~LA~~lA~~G~rVllvD   54 (329)
T 2woo_A           18 SLKWIFVGGKGGVGKTTTSCSLAIQMSKVRSSVLLIS   54 (329)
T ss_dssp             TCCEEEEECSSSSSHHHHHHHHHHHHHTSSSCEEEEE
T ss_pred             CCEEEEEeCCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            3567778899999999999999988776533344443

>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A* 1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A* 2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...

Probab=82.74  E-value=1.1  Score=49.08  Aligned_cols=55  Identities=20%  Similarity=0.122  Sum_probs=32.4

Q ss_pred             CceEEEEEccCCCchhHHHH-HHHHHhhh------cccceEEEeeecccccccCCHHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAG-VVFNQFSQ------KFEGKYFMANVREESEKCGGLVHLRNQVLS  261 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~-~v~~~~~~------~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~  261 (709)
                      ..+.++|.|.+|+|||+||. .+++....      +-+..+.+..+++...   ...++.+.+..
T Consensus       161 rGQR~~I~g~~g~GKT~Lal~~I~~q~~~~~~~~~~~d~~~V~~~IGeR~~---Ev~~~~~~~~~  222 (510)
T 2ck3_A          161 RGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRS---TVAQLVKRLTD  222 (510)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSCCTTTCCEEEEEEESCCHH---HHHHHHHHHHH
T ss_pred             cCCEEEEecCCCCCchHHHHHHHHHHHhhccccccCCCeEEEEEECCCCcH---HHHHHHHHHHh
Confidence            34677899999999999964 66665542      2344444444444322   24444444443

>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=82.72  E-value=0.56  Score=44.27  Aligned_cols=29  Identities=17%  Similarity=0.234  Sum_probs=22.8

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.|+|.+|.|||++|.+++..   . ...+|+.
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~---~-~~~~yia   30 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD---A-PQVLYIA   30 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS---C-SSEEEEE
T ss_pred             EEEECCCCCcHHHHHHHHHhc---C-CCeEEEe
Confidence            679999999999999999865   1 2355655

>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=82.70  E-value=0.63  Score=44.39  Aligned_cols=23  Identities=26%  Similarity=0.299  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .-|+|.|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (207)
T 2fv8_A           26 KKLVVVGDGACGKTCLLIVFSKD   48 (207)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHS
T ss_pred             cEEEEECcCCCCHHHHHHHHhcC
Confidence            46889999999999999988763

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=82.67  E-value=0.81  Score=45.53  Aligned_cols=37  Identities=24%  Similarity=0.268  Sum_probs=27.2

Q ss_pred             CceEEEEE-ccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIW-GMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~-G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..++|+|+ +-||+||||+|..++..+...-..+..+.
T Consensus         5 ~~~vI~v~s~kGGvGKTt~a~~LA~~la~~g~~VlliD   42 (257)
T 1wcv_1            5 KVRRIALANQKGGVGKTTTAINLAAYLARLGKRVLLVD   42 (257)
T ss_dssp             CCCEEEECCSSCCHHHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEEeCCCCchHHHHHHHHHHHHHHCCCCEEEEE
Confidence            45788886 78899999999999998766533334443

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=82.64  E-value=0.71  Score=43.37  Aligned_cols=24  Identities=33%  Similarity=0.284  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....|+|.|.+|+|||||...+..
T Consensus        16 ~~~ki~v~G~~~~GKSsl~~~l~~   39 (199)
T 4bas_A           16 TKLQVVMCGLDNSGKTTIINQVKP   39 (199)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhc
Confidence            457889999999999999998876

>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase, single analysis, thermoalkaliphilic, hydrolase; 3.06A {Bacillus SP} PDB: 1sky_B

Probab=82.57  E-value=3.2  Score=45.32  Aligned_cols=88  Identities=15%  Similarity=0.081  Sum_probs=46.7

Q ss_pred             CceEEEEEccCCCchhHHHH-HHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCC----CCCCCC-hhH
Q 005191          204 DVRLVGIWGMGGIGKTTIAG-VVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENF----DIGTPK-IPQ  277 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~-~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~----~~~~~~-~~~  277 (709)
                      ..+.++|.|.+|+|||+||. .+++..  +-+..+.+..+++..   ....++.+.+...-.....    ...++. ..+
T Consensus       161 rGQR~~Ifg~~g~GKT~Lal~~I~~~~--~~dv~~V~~~iGeR~---~Ev~~~~~~~~~~g~m~~tvvV~atad~p~~~r  235 (502)
T 2qe7_A          161 RGQRELIIGDRQTGKTTIAIDTIINQK--GQDVICIYVAIGQKQ---STVAGVVETLRQHDALDYTIVVTASASEPAPLL  235 (502)
T ss_dssp             TTCBCEEEECSSSCHHHHHHHHHHGGG--SCSEEEEEEEESCCH---HHHHHHHHHHHHTTCSTTEEEEEECTTSCHHHH
T ss_pred             cCCEEEEECCCCCCchHHHHHHHHHhh--cCCcEEEEEECCCcc---hHHHHHHHHHhhCCCcceeEEEEECCCCCHHHH
Confidence            34678899999999999965 666654  234343444444332   2244455554432111000    111111 111


Q ss_pred             --------HHHHHH--ccCceEEEecCCC
Q 005191          278 --------YIRDRL--QRMKVFIVLDDVN  296 (709)
Q Consensus       278 --------~l~~~L--~~kr~LLVLDdv~  296 (709)
                              .+.+++  +++.+||++||+-
T Consensus       236 ~~a~~~a~tiAEyfrd~G~dVLl~~Dslt  264 (502)
T 2qe7_A          236 YLAPYAGCAMGEYFMYKGKHALVVYDDLS  264 (502)
T ss_dssp             HHHHHHHHHHHHHHHTTTCEEEEEEECHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcEEEEEecHH
Confidence                    223333  4689999999983

>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=82.51  E-value=0.6  Score=43.47  Aligned_cols=25  Identities=24%  Similarity=0.210  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...-|+|.|.+|+|||||...+...
T Consensus        17 ~~~~i~v~G~~~~GKssl~~~l~~~   41 (186)
T 1ksh_A           17 RELRLLMLGLDNAGKTTILKKFNGE   41 (186)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTC
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhcC
Confidence            4567889999999999999998763

>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=82.48  E-value=0.62  Score=44.21  Aligned_cols=24  Identities=17%  Similarity=0.171  Sum_probs=20.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..--|+|.|.+|+|||||...+..
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~   47 (200)
T 2o52_A           24 FLFKFLVIGSAGTGKSCLLHQFIE   47 (200)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHC
T ss_pred             cceEEEEECcCCCCHHHHHHHHHh
Confidence            345688999999999999999875

>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=82.43  E-value=0.66  Score=44.20  Aligned_cols=24  Identities=17%  Similarity=0.304  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|+|.|.+|+|||||...+...
T Consensus        20 ~~~i~v~G~~~~GKSsli~~l~~~   43 (213)
T 3cph_A           20 IMKILLIGDSGVGKSCLLVRFVED   43 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHC
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhC
Confidence            457889999999999999998863

>3ch4_B Pmkase, phosphomevalonate kinase; parallel beta-sheet with the strand order 23145, walker A motif, cholesterol biosynthesis, lipid synthesis; 1.76A {Homo sapiens}

Probab=82.43  E-value=1  Score=43.30  Aligned_cols=26  Identities=12%  Similarity=0.098  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|+|+|++|+||+++|..+.+.+
T Consensus        10 ~~~II~itGk~~SGKd~va~~l~~~~   35 (202)
T 3ch4_B           10 PRLVLLFSGKRKSGKDFVTEALQSRL   35 (202)
T ss_dssp             CSEEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCChHHHHHHHHHHc
Confidence            45799999999999999998886654

>1ihu_A Arsenical pump-driving ATPase; aluminum fluoride, ADP, ARSA ATPase, ATP binding site, hydro; HET: ADP; 2.15A {Escherichia coli} SCOP: c.37.1.10 c.37.1.10 PDB: 1f48_A* 1ii0_A* 1ii9_A*

Probab=82.41  E-value=1  Score=50.80  Aligned_cols=36  Identities=19%  Similarity=0.240  Sum_probs=27.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      ..+++.+.|.||+||||+|..++..+...-..+..+
T Consensus         7 ~~~i~~~sgkGGvGKTT~a~~lA~~lA~~G~rVLlv   42 (589)
T 1ihu_A            7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLV   42 (589)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCEEEEEeCCCcCHHHHHHHHHHHHHHHCCCcEEEE
Confidence            457888999999999999999998776553333443

>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=82.37  E-value=0.63  Score=44.77  Aligned_cols=23  Identities=35%  Similarity=0.381  Sum_probs=20.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .--|+|.|.+|+|||||...+..
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            45688999999999999999875

>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=82.35  E-value=0.67  Score=44.08  Aligned_cols=24  Identities=17%  Similarity=0.156  Sum_probs=20.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|+|.|.+|+|||||...+...
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            456889999999999999998763

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=82.28  E-value=0.55  Score=49.62  Aligned_cols=35  Identities=20%  Similarity=0.253  Sum_probs=26.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...++|+|+.|.|||||++.+...+.. ....+.+.
T Consensus       175 G~~i~ivG~sGsGKSTll~~l~~~~~~-~~g~I~ie  209 (361)
T 2gza_A          175 ERVIVVAGETGSGKTTLMKALMQEIPF-DQRLITIE  209 (361)
T ss_dssp             TCCEEEEESSSSCHHHHHHHHHTTSCT-TSCEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCCC-CceEEEEC
Confidence            458999999999999999999876543 23444444

>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=82.27  E-value=0.68  Score=43.96  Aligned_cols=23  Identities=30%  Similarity=0.312  Sum_probs=20.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .-|+|.|.+|+|||||...+...
T Consensus        26 ~ki~vvG~~~~GKSsli~~l~~~   48 (201)
T 2gco_A           26 KKLVIVGDGACGKTCLLIVFSKD   48 (201)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhC
Confidence            46889999999999999998863

>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=82.15  E-value=0.8  Score=44.50  Aligned_cols=25  Identities=16%  Similarity=0.312  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....|+|.|.+|+|||||...+...
T Consensus        28 ~~~kI~vvG~~~vGKSsLin~l~~~   52 (228)
T 2qu8_A           28 HKKTIILSGAPNVGKSSFMNIVSRA   52 (228)
T ss_dssp             TSEEEEEECSTTSSHHHHHHHHTTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            4567889999999999999998763

>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=82.12  E-value=0.73  Score=47.30  Aligned_cols=24  Identities=25%  Similarity=0.470  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...|+|.|.+|+|||||...+...
T Consensus         8 ~~~VaIvG~~nvGKSTLln~L~g~   31 (301)
T 1ega_A            8 CGFIAIVGRPNVGKSTLLNKLLGQ   31 (301)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
Confidence            468999999999999999998764

>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=81.97  E-value=0.43  Score=44.27  Aligned_cols=23  Identities=22%  Similarity=0.195  Sum_probs=10.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..-|+|.|.+|+|||||...+..
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            45688999999999999998875

---

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	709
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	2e-38
d1fyva_	161	c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (H	1e-18
d1fyxa_	149	c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (H	5e-16

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  141 bits (357), Expect = 2e-38
 Identities = 43/260 (16%), Positives = 73/260 (28%), Gaps = 19/260 (7%)

Query: 184 LIGLESHVEQVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFN---QFSQKFEGKYFM 239
               E HV++V   L  +   D   + + G  G GK+ IA    +   Q           
Sbjct: 22  CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVW 81

Query: 240 ANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIP-------QYIRDRLQRMKVFIVL 292
                 + K    +     ++ K   +  +  + +               + R     V 
Sbjct: 82  LKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVF 141

Query: 293 DDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKTILERY-GTHRIYEVEGLNCNEALRLFC 351
           DDV +   + +            R +VTTRD  I      T    EV  L  +E      
Sbjct: 142 DDVVQEETIRWAQEL------RLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLE 195

Query: 352 SCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNLKRISDSD 411
           +         E            + GNP  L +   S   K+        N L+      
Sbjct: 196 AYGMPM-PVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVG 254

Query: 412 IYGVLKIGYDELSWEEKNLF 431
           +  +    Y  L+   +   
Sbjct: 255 VECITPYSYKSLAMALQRCV 274

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]} Length = 161

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 81.3 bits (200), Expect = 1e-18
 Identities = 23/118 (19%), Positives = 48/118 (40%), Gaps = 3/118 (2%)

Query: 5   KYDVFLSFRGEDTRDNFLSHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISV 63
           ++  F+S+ G D+     + L+  L+++ ++  + E     G  I   ++  IE+S  S+
Sbjct: 12  QFHAFISYSGHDSF-WVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSI 70

Query: 64  IIFSKNYASSKWCLDELVKIL-KCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVKH 120
            + S N+  S+WC  EL         +    +I I     P      +     + +  
Sbjct: 71  FVLSPNFVQSEWCHYELYFAHHNLFHEGSNSLILILLEPIPQYSIPSSYHKLKSLMAR 128

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]} Length = 149

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 73.6 bits (180), Expect = 5e-16
 Identities = 27/136 (19%), Positives = 49/136 (36%), Gaps = 5/136 (3%)

Query: 4   CKYDVFLSFRGEDTRDNFLSHLVVALQE--KKIKTFIDE-ELTRGDQISPALVKAIEESM 60
             YD F+S+   D      + +V  L+      K  + + +   G  I   ++ +IE+S 
Sbjct: 4   ICYDAFVSYSERD-AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSH 62

Query: 61  ISVIIFSKNYASSKWCLDELVKIL-KCHKKNIQLVIPIFYNVDPSVVRNQTGSFKDAFVK 119
            +V + S+N+  S+WC  EL     +   +N    I I           Q        + 
Sbjct: 63  KTVFVLSENFVKSEWCKYELDFSHFRLFDENNDAAILILLEPIEKKAIPQRFCKLRKIMN 122

Query: 120 HDKQFNKKMPEKVQKW 135
                   M E  ++ 
Sbjct: 123 TKTYLEWPMDEAQREG 138

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	709
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d1fyva_	161	Toll-like receptor 1, TLR1 {Human (Homo sapiens) [	99.72
d1fyxa_	149	Toll-like receptor 2, TLR2 {Human (Homo sapiens) [	99.67
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.3
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.82
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.67
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.61
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.58
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.54
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.53
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.52
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.5
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.49
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.43
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.28
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.26
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.23
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.21
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.12
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.1
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.09
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.03
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.98
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	97.94
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.91
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.12
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.74
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.61
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.54
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.49
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.45
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.44
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.41
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.31
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.2
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.1
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.1
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.06
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.05
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.0
d2qy9a2	211	GTPase domain of the signal recognition particle r	95.99
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.98
d1okkd2	207	GTPase domain of the signal recognition particle r	95.82
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.76
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.74
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.74
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.74
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.73
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	95.71
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	95.68
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.64
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.56
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.54
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	95.53
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.52
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.51
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.44
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.37
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.35
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.33
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.27
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.19
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	94.98
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.97
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	94.9
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	94.89
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	94.79
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	94.77
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	94.7
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.6
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	94.56
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.53
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.49
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.44
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.36
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.3
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	94.26
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.14
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.12
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	94.1
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.0
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	93.95
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	93.92
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	93.89
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.8
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.75
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	93.71
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.56
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.34
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	93.31
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.31
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	93.31
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.24
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.23
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	93.23
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.2
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	93.07
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	92.91
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.85
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	92.76
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	92.72
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	92.71
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	92.68
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	92.6
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.6
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.45
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.32
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	92.29
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.27
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.26
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	92.2
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	91.54
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	91.25
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.03
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.99
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	90.34
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	90.27
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	90.26
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.96
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	89.91
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	89.68
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	89.5
d1g2912	240	Maltose transport protein MalK, N-terminal domain	89.43
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	89.37
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	89.22
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	89.2
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	89.2
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	89.2
d2awna2	232	Maltose transport protein MalK, N-terminal domain	89.16
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	89.15
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	89.12
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	89.02
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	89.0
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	88.97
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	88.97
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	88.91
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	88.79
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	88.77
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	88.56
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.5
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	88.42
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	88.42
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	88.41
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	88.35
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	88.35
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	88.34
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	88.3
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	88.23
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	88.18
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	88.17
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	88.15
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	88.07
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	88.05
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	88.01
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	87.93
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	87.92
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	87.86
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	87.83
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	87.78
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	87.71
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	87.66
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	87.59
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	87.58
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	87.54
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	87.47
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	87.45
d1nrjb_	209	Signal recognition particle receptor beta-subunit	87.43
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	87.41
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	87.36
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	87.35
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	87.3
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	87.11
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	87.03
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	86.96
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	86.91
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	86.9
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	86.88
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	86.88
d2fh5b1	207	Signal recognition particle receptor beta-subunit	86.87
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	86.85
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	86.8
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	86.78
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	86.61
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	86.57
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	86.54
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	86.43
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	86.34
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	86.28
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	86.17
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	86.13
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	86.04
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	86.01
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	85.99
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	85.95
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	85.95
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	85.87
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	85.79
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	85.77
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	85.65
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	85.55
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	85.51
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	85.5
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	85.39
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	85.27
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	85.27
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	85.2
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	85.08
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	85.08
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	84.87
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	84.86
d1tuea_	205	Replication protein E1 helicase domain {Human papi	84.8
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	84.79
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	84.63
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	84.33
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	84.09
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	84.06
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	83.99
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	83.82
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	83.67
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	83.08
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	82.85
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	82.55
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	82.27
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	82.22
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	82.16
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	82.11
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	82.06
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	81.52
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	80.95

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=1.5e-36  Score=313.53  Aligned_cols=247  Identities=16%  Similarity=0.157  Sum_probs=195.0

Q ss_pred             CCCCCccccchhhhHHHhhhhc-cCCCceEEEEEccCCCchhHHHHHHHHH----hhhcccceEEEeeecccccccCCHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI-GLPDVRLVGIWGMGGIGKTTIAGVVFNQ----FSQKFEGKYFMANVREESEKCGGLV  253 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~----~~~~f~~~~~v~~~~~~~~~~~~l~  253 (709)
                      +..+.++||+.++++|.++|.. .+.+.++|+|+||||+||||||+++|++    ...+|++++|+........  ..+.
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~--~~l~   94 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPK--STFD   94 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTT--HHHH
T ss_pred             CCCCceeCcHHHHHHHHHHHHhccCCCceEEEEECCCCCCHHHHHHHHHHhhhhhhhhcCceEEEEEecCCCCH--HHHH
Confidence            3455678999999999999975 4456899999999999999999999986    4556889999974333221  2233


Q ss_pred             HHHHHHHHHhcCCCC-CCCC--CC-----hhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          254 HLRNQVLSKLLGENF-DIGT--PK-----IPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       254 ~l~~~ll~~l~~~~~-~~~~--~~-----~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      .....++..++.... ....  ..     ....+.+.+.++++|+||||||+.++++.+..      .||+||||||+..
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~  168 (277)
T d2a5yb3          95 LFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVE  168 (277)
T ss_dssp             HHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGG
T ss_pred             HHHHHHHHHhcchhhcCCccchhhhhHHHHHHHHHHHhccCCeeEecchhhHHhhhhhhcc------cCceEEEEeehHH
Confidence            333344444322211 1111  11     22346677889999999999999999987653      4789999999999


Q ss_pred             hhhhcCcc-eEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHHhhhhcCCChhhHHHHHHHh
Q 005191          326 ILERYGTH-RIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVLGSSFHRKSKPDWVNTLNNL  404 (709)
Q Consensus       326 v~~~~~~~-~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~la~~L~~~~~~ew~~~L~~L  404 (709)
                      ++..+... +.|+|++|+.+||++||..+++....++ ..++++++|+++|+|+||||+++|+.|+.++.++|....++|
T Consensus       169 v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~-~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L  247 (277)
T d2a5yb3         169 ISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGE-KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKL  247 (277)
T ss_dssp             GGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--C-HHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHH
T ss_pred             HHHhcCCCCceEECCCCCHHHHHHHHHHHhCCccCch-hhHHHHHHHHHHhCCCHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            98876544 7899999999999999999987655443 567889999999999999999999999999999999999999


Q ss_pred             hcCCCCcHHhHHHHhhcCCCHHHHHHHHhc
Q 005191          405 KRISDSDIYGVLKIGYDELSWEEKNLFLDI  434 (709)
Q Consensus       405 ~~~~~~~i~~~L~~Sy~~L~~~~k~~fl~l  434 (709)
                      .+....++..++..||++||+++|.||.++
T Consensus       248 ~~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         248 ESRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             hcCcHHHHHHHHHHHHhcccHHHHHHHHhC
Confidence            887788899999999999999999999864

>d1fyva_ c.23.2.1 (A:) Toll-like receptor 1, TLR1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 1, TLR1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=9.4e-19  Score=164.06  Aligned_cols=97  Identities=23%  Similarity=0.474  Sum_probs=88.1

Q ss_pred             CCcceEEecCCcccccCchH-HHHHHHHHhCCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhHHHH
Q 005191            3 SCKYDVFLSFRGEDTRDNFL-SHLVVALQEKKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCLDEL   80 (709)
Q Consensus         3 ~~~ydvFiS~~~~D~~~~f~-~~L~~~L~~~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~~El   80 (709)
                      +++|||||||+++|  ..|| +.|...|+++|+++|+|+ ++.+|+.+.++|.++|++|+.+|+|+|++|+.|.||..|+
T Consensus        10 ~~~yDvFisys~~D--~~~v~~~L~~~Le~~g~~v~~d~~d~~~G~~~~~~i~~~i~~s~~~i~vlS~~~~~s~w~~~E~   87 (161)
T d1fyva_          10 NLQFHAFISYSGHD--SFWVKNELLPNLEKEGMQICLHERNFVPGKSIVENIITCIEKSYKSIFVLSPNFVQSEWCHYEL   87 (161)
T ss_dssp             CCCEEEEEECCGGG--HHHHHHTHHHHHHTTTCCEECTTTTCCTTSCHHHHHHHHHHHEEEEEEEESHHHHHHTSHHHHH
T ss_pred             CCeeEEEEecChhH--HHHHHHHHHHHHHhCCCcceEeccccccccccHHHHHHHHHhCCEEEEEecCccccChHHHHHH
Confidence            57899999999999  6677 579999999999999999 9999999999999999999999999999999999999999


Q ss_pred             HHHHHhh-hhCCceeEeEEeec
Q 005191           81 VKILKCH-KKNIQLVIPIFYNV  101 (709)
Q Consensus        81 ~~~~~~~-~~~~~~vlPvf~~v  101 (709)
                      ..++.+. +.+..++|||+++-
T Consensus        88 ~~a~~~~~~~~~~~lIpV~l~~  109 (161)
T d1fyva_          88 YFAHHNLFHEGSNSLILILLEP  109 (161)
T ss_dssp             HTTSCCCSCSSCSSEEEEESSC
T ss_pred             HHHHHHHHHcCCCceeEEEEec
Confidence            9887655 34456899999873

>d1fyxa_ c.23.2.1 (A:) Toll-like receptor 2, TLR2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Flavodoxin-like
superfamily: Toll/Interleukin receptor TIR domain
family: Toll/Interleukin receptor TIR domain
domain: Toll-like receptor 2, TLR2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=3.8e-18  Score=157.80  Aligned_cols=99  Identities=24%  Similarity=0.394  Sum_probs=87.0

Q ss_pred             CCCcceEEecCCcccccCchHH-HHHHHHHh--CCCceEEcC-CCCCCCcccHHHHHHHHhccceeEEeccCcccchhhH
Q 005191            2 ASCKYDVFLSFRGEDTRDNFLS-HLVVALQE--KKIKTFIDE-ELTRGDQISPALVKAIEESMISVIIFSKNYASSKWCL   77 (709)
Q Consensus         2 ~~~~ydvFiS~~~~D~~~~f~~-~L~~~L~~--~g~~~~~d~-~~~~g~~~~~~i~~ai~~S~~~ivvlS~~y~~S~wc~   77 (709)
                      .+..|||||||+++|  ..||. .|...|++  .|+++|+|+ ++.+|+.+.++|.++|++|+.+|+|+||+|+.|.||.
T Consensus         2 ~~~~YDvFiSys~~D--~~~V~~~l~~~LE~~~~g~~~~~~~rd~~~G~~~~~~i~~~i~~S~~~i~vlS~~~l~s~wc~   79 (149)
T d1fyxa_           2 RNICYDAFVSYSERD--AYWVENLMVQELENFNPPFKLCLHKRDFIHGKWIIDNIIDSIEKSHKTVFVLSENFVKSEWCK   79 (149)
T ss_dssp             CSCCEEEEEECCGGG--HHHHHTHHHHHHTTSSSCCCEEEHHHHCCSSSCHHHHHHHHHHHEEEEEEEECHHHHHHHTHH
T ss_pred             CCCEEEEEEECchhh--HHHHHHHHHHHHHhcCCCceEEEecccccccchHHHHHHHHHHhCCEEEEEEcCccccccchH
Confidence            367899999999999  66765 58999986  489999998 9999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhh-hhCCceeEeEEeecC
Q 005191           78 DELVKILKCH-KKNIQLVIPIFYNVD  102 (709)
Q Consensus        78 ~El~~~~~~~-~~~~~~vlPvf~~v~  102 (709)
                      .|+..++... +.++.++|||+++..
T Consensus        80 ~E~~~a~~~~~~~~~~~iIpV~l~~~  105 (149)
T d1fyxa_          80 YELDFSHFRLFDENNDAAILILLEPI  105 (149)
T ss_dssp             HHSCCSCCTTCGGGTTCCEEEESSCC
T ss_pred             HHHHHHHHHHHHcCCceEEEEEeccC
Confidence            9998776544 456678999998843

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.30  E-value=1.3e-11  Score=124.46  Aligned_cols=200  Identities=14%  Similarity=0.166  Sum_probs=114.4

Q ss_pred             CCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      |...+..|+||++++++|.+.      ..+.+.|+|++|+|||+|+++++++....+   .|+...............+.
T Consensus         7 p~~~~~~f~GR~~el~~l~~~------~~~~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i~~~~~~~~~~~~~~~~~   77 (283)
T d2fnaa2           7 PKDNRKDFFDREKEIEKLKGL------RAPITLVLGLRRTGKSSIIKIGINELNLPY---IYLDLRKFEERNYISYKDFL   77 (283)
T ss_dssp             CCCSGGGSCCCHHHHHHHHHT------CSSEEEEEESTTSSHHHHHHHHHHHHTCCE---EEEEGGGGTTCSCCCHHHHH
T ss_pred             CCCChhhCCChHHHHHHHHhc------cCCEEEEEcCCCCcHHHHHHHHHHHCCCCe---EEEEeccccccccccHHHHH
Confidence            335678999999999998874      236889999999999999999988764432   33332211122212233333


Q ss_pred             HHHHHHhc-------------CCC--------------CCCCCCChhHHHHHH--HccCceEEEecCCCChh-----h-h
Q 005191          257 NQVLSKLL-------------GEN--------------FDIGTPKIPQYIRDR--LQRMKVFIVLDDVNKYG-----Q-L  301 (709)
Q Consensus       257 ~~ll~~l~-------------~~~--------------~~~~~~~~~~~l~~~--L~~kr~LLVLDdv~~~~-----~-~  301 (709)
                      ..+.....             ...              ...........+...  ..++++++|+|++....     . +
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~  157 (283)
T d2fnaa2          78 LELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLL  157 (283)
T ss_dssp             HHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCH
T ss_pred             HHHHHHhhhhhhhhHHHHHHHHhhhcccccccccccccchhhhhHHHHHHHHHHhhcccccccccchhhhhcccchHHHH
Confidence            33332210             000              000011133333332  24688999999984321     1 1


Q ss_pred             hhhhcCCCCCCCCeEEEEEcCchhhhhhc------------CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHH
Q 005191          302 EYFDGGLDRFGPGSRIIVTTRDKTILERY------------GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSE  369 (709)
Q Consensus       302 ~~l~~~l~~~~~gsrIIvTTR~~~v~~~~------------~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~  369 (709)
                      ..+..... .......+++++........            .....+.|++++.+++.+++.+.........+    ..+
T Consensus       158 ~~l~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~----~~~  232 (283)
T d2fnaa2         158 PALAYAYD-NLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFK----DYE  232 (283)
T ss_dssp             HHHHHHHH-HCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCC----CHH
T ss_pred             HHHHHHHH-hhhhhhhhhccccchHHHHHHHhhhhcchhcccceeEEeeCCCCHHHHHHHHHhhhhhcCCCHH----HHH
Confidence            11111111 12344555555443222111            12367899999999999999876532222221    257


Q ss_pred             HHHHHhcCCchHHHHHhhhhc
Q 005191          370 TAAHYAKGNPLALQVLGSSFH  390 (709)
Q Consensus       370 ~Iv~~~gGlPLAL~~la~~L~  390 (709)
                      +|++.++|+|..+..++..+.
T Consensus       233 ~i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         233 VVYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHHhCCCHHHHHHHHHHHH
Confidence            899999999999999987664

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=98.82  E-value=5.9e-08  Score=96.58  Aligned_cols=174  Identities=13%  Similarity=0.158  Sum_probs=103.2

Q ss_pred             CCCCCCCccccchhhhHHHhhhhc----cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAI----GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGL  252 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~----~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l  252 (709)
                      +...|..++||+.+++++.++|..    .....+.+.|+|++|+|||++|+.+++.+...............    ....
T Consensus        11 ~~y~p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~----~~~~   86 (276)
T d1fnna2          11 PSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI----YRNF   86 (276)
T ss_dssp             TTCCCSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT----CCSH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHhCCCCCCCceEEECCCCCCHHHHHHHHHHHHhcccCCcEEEecchh----hhhh
Confidence            334567899999999999998864    22346789999999999999999999988766554443332211    1445


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCC--hhHHHHHHHc--cCceEEEecCCCChh-----hhhhhhcCCCC-CCCCeEEEEEcC
Q 005191          253 VHLRNQVLSKLLGENFDIGTPK--IPQYIRDRLQ--RMKVFIVLDDVNKYG-----QLEYFDGGLDR-FGPGSRIIVTTR  322 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~--~~~~l~~~L~--~kr~LLVLDdv~~~~-----~~~~l~~~l~~-~~~gsrIIvTTR  322 (709)
                      ......+....+..........  ....+.+.+.  .....+++|+++...     ....+...... ......+|.++.
T Consensus        87 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~  166 (276)
T d1fnna2          87 TAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGH  166 (276)
T ss_dssp             HHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEES
T ss_pred             hhhhhhhHHhhhhhhhhhccchhHHHHHHHHHHhhcccccccchhHHHHhhhhhhhhHHHHHhccccccccceEEeecCC
Confidence            5566666666543332222211  3333444333  256677777775422     11222221111 123344555555


Q ss_pred             chhhhhhcC-------cceEEEecCCChHHHHHHhhhcc
Q 005191          323 DKTILERYG-------THRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       323 ~~~v~~~~~-------~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      .........       ....+.+.+++.++..+++.+++
T Consensus       167 ~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         167 NDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             STHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             chhhhhhcchhhhhhhcchhccccchhHHHHHHHHHHHH
Confidence            543322111       22467899999999999988765

>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=98.67  E-value=6.4e-08  Score=96.16  Aligned_cols=149  Identities=16%  Similarity=0.188  Sum_probs=95.5

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEeeecccccc---cCCH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMANVREESEK---CGGL  252 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~~~~~~~~~---~~~l  252 (709)
                      +..+||++|++++...|....  ..-+.|+|++|+|||+|+..+++++...      ....+|..+.......   ...+
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~   95 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDF   95 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCH
T ss_pred             CcccChHHHHHHHHHHHhcCc--cCCcEEECCCCCcHHHHHHHHHHHHHhCCcccccccceeEEeeechHhccCccchhH
Confidence            458999999999999997542  3456699999999999999999986442      2345555433222110   0112


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHH-ccCceEEEecCCCCh----------hhhhhh-hcCCCCCCCCeEEEEE
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRL-QRMKVFIVLDDVNKY----------GQLEYF-DGGLDRFGPGSRIIVT  320 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L-~~kr~LLVLDdv~~~----------~~~~~l-~~~l~~~~~gsrIIvT  320 (709)
                      ...+..                    +.+.+ ..+++++++|++...          .....+ .+.+.  ...-++|.|
T Consensus        96 e~r~~~--------------------i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~--rg~i~vIga  153 (268)
T d1r6bx2          96 EKRFKA--------------------LLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS--SGKIRVIGS  153 (268)
T ss_dssp             HHHHHH--------------------HHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS--SCCCEEEEE
T ss_pred             HHHHHH--------------------HHHHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh--CCCCeEEEe
Confidence            222222                    22222 346799999998532          123334 44544  345788888


Q ss_pred             cCchhhhhhcC-------cceEEEecCCChHHHHHHhhhcc
Q 005191          321 TRDKTILERYG-------THRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       321 TR~~~v~~~~~-------~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      |...+......       ....+.+++++.+++.+++....
T Consensus       154 tT~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         154 TTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             ECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHhhcHHHHhhhcccccCCCCHHHHHHHHHHhh
Confidence            88776544322       33788999999999999986544

>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=98.61  E-value=1.1e-07  Score=89.42  Aligned_cols=149  Identities=11%  Similarity=0.109  Sum_probs=89.7

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEeeecccccccCCHHHH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      +..+||++|++++...|....  ..-+.++|.+|+|||+++..+++++...      -...+|..+....-......-++
T Consensus        22 d~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~   99 (195)
T d1jbka_          22 DPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF   99 (195)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH
T ss_pred             CCCcCcHHHHHHHHHHHhccC--CCCeEEEecCCcccHHHHHHHHHHHHhCCCCHHHcCceEEEeeHHHHhccCCccHHH
Confidence            458999999999999998542  3356799999999999999999986542      23455554332211110000011


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHc-cCceEEEecCCCCh----------hhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQ-RMKVFIVLDDVNKY----------GQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~-~kr~LLVLDdv~~~----------~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      ...                +...+.+... ..+++|++|++...          +..+-+.+.+.  ...-++|.||..+
T Consensus       100 E~r----------------l~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~--rg~l~~IgatT~e  161 (195)
T d1jbka_         100 EER----------------LKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA--RGELHCVGATTLD  161 (195)
T ss_dssp             HHH----------------HHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH--TTSCCEEEEECHH
T ss_pred             HHH----------------HHHHHHHHhcCCCcEEEEcchHHHHhcCCCCCCcccHHHHHHHHHh--CCCceEEecCCHH
Confidence            000                1122222222 34799999999532          11133333333  2456788888766


Q ss_pred             hhhhhc-------CcceEEEecCCChHHHHHHh
Q 005191          325 TILERY-------GTHRIYEVEGLNCNEALRLF  350 (709)
Q Consensus       325 ~v~~~~-------~~~~~~~L~~L~~~ea~~Lf  350 (709)
                      +.....       .....+.+++++.+++.+++
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHcCHHHHhcCCEeecCCCCHHHHHHHh
Confidence            544332       23478899999999888765

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=98.58  E-value=6.1e-07  Score=89.48  Aligned_cols=192  Identities=15%  Similarity=0.092  Sum_probs=101.9

Q ss_pred             CCCCCccccchhhhHHHhhhhc----cC---CCceEEEEEccCCCchhHHHHHHHHHhhhcc-----c-ceEEEeeeccc
Q 005191          179 SDSDGLIGLESHVEQVRSLLAI----GL---PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-----E-GKYFMANVREE  245 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~----~~---~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-----~-~~~~v~~~~~~  245 (709)
                      ..|+.++||+.++++|.+.+..    +.   +...++.|+|++|+|||++++.+++.+....     . ...++.    .
T Consensus        13 ~~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~----~   88 (287)
T d1w5sa2          13 YIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----A   88 (287)
T ss_dssp             CCCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----G
T ss_pred             cCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCcceEEEeECCCCCCHHHHHHHHHHHHHhhcccccCCceeeeec----c
Confidence            4678899999999999887632    11   1133566789999999999999999765432     1 122222    1


Q ss_pred             ccccCCHHHHHHHHHHHhcCCCCCCCCCC--hhHHHHHHH--ccCceEEEecCCCCh--------hhhhh---hh---cC
Q 005191          246 SEKCGGLVHLRNQVLSKLLGENFDIGTPK--IPQYIRDRL--QRMKVFIVLDDVNKY--------GQLEY---FD---GG  307 (709)
Q Consensus       246 ~~~~~~l~~l~~~ll~~l~~~~~~~~~~~--~~~~l~~~L--~~kr~LLVLDdv~~~--------~~~~~---l~---~~  307 (709)
                      ... .........................  ....+.+..  .+...++++|.++..        +....   +.   ..
T Consensus        89 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~  167 (287)
T d1w5sa2          89 FNA-PNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPS  167 (287)
T ss_dssp             GGC-CSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCC
T ss_pred             ccc-cchhhHHHHHhhhcccccccccchHHHHHHHHHHHHHhccCccccceeEEEEeccccccchhHHHHHHHHHHhcch
Confidence            111 3344555555555533322221111  333444333  345678888877421        11111   11   11


Q ss_pred             CCCCCCCeEEEEEcCchhhh-------h-hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHh
Q 005191          308 LDRFGPGSRIIVTTRDKTIL-------E-RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYA  375 (709)
Q Consensus       308 l~~~~~gsrIIvTTR~~~v~-------~-~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~  375 (709)
                      ......-..|++++......       . .......+.+++++.++..+++..++-..........+..+.|++++
T Consensus       168 ~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         168 RDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             TTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             hhcccceeEEeecccHHHHHHHHhhccchhcccceeeeccCCcHHHHHHHHhhhHHHhhccCCCCHHHHHHHHHHH
Confidence            11112223344444333111       0 11234678999999999999998776221111112234556666655

>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=98.54  E-value=8.3e-08  Score=93.32  Aligned_cols=185  Identities=16%  Similarity=0.198  Sum_probs=110.6

Q ss_pred             CCCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEeeecccccccCCHHHH
Q 005191          177 AISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       177 ~~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      .|.....+||.+..++.|.+++..+  ....+.++|++|+||||+|+.+++.+...+ ...++..+...   . .+...+
T Consensus        10 rP~~~~d~ig~~~~~~~L~~~~~~~--~~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~---~-~~~~~i   83 (224)
T d1sxjb2          10 RPQVLSDIVGNKETIDRLQQIAKDG--NMPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD---D-RGIDVV   83 (224)
T ss_dssp             CCSSGGGCCSCTHHHHHHHHHHHSC--CCCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTS---C-CSHHHH
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHcC--CCCeEEEECCCCCCchhhHHHHHHHHhccccccccccccccc---c-CCceeh
Confidence            3455678999999999999999854  334477999999999999999998765432 22222222211   1 223333


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-hhhhh-cC
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-TILER-YG  331 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~-~~  331 (709)
                      ...+......... .            ...+.-++|+|+++..  .....+...+.......++++||.+. .+... .+
T Consensus        84 ~~~~~~~~~~~~~-~------------~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~s  150 (224)
T d1sxjb2          84 RNQIKHFAQKKLH-L------------PPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS  150 (224)
T ss_dssp             HTHHHHHHHBCCC-C------------CTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT
T ss_pred             hhHHHHHHHhhcc-C------------CCcceEEEEEecccccchhHHHHHhhhccccccceeeeeccCchhhhhhHHHH
Confidence            2222222111100 0            0234568899999642  22333333333334566776666554 22221 12


Q ss_pred             cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       332 ~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      ....+++++++.++-...+.+.+......  -..+..+.|++.++|.+--+
T Consensus       151 r~~~i~~~~~~~~~i~~~l~~i~~~e~~~--i~~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         151 QCAILRYSKLSDEDVLKRLLQIIKLEDVK--YTNDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHHHHHTCC--BCHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHhhhcccchhhhHHHHHHHHHhcccC--CCHHHHHHHHHHcCCcHHHH
Confidence            34678999999999999988776433211  12356789999999987543

>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=98.53  E-value=6.4e-08  Score=94.67  Aligned_cols=190  Identities=12%  Similarity=0.122  Sum_probs=109.2

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc--cceEEEeeecccccccCCHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF--EGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f--~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      |..-+.++|.+..++.|..++...  ....+.++|++|+||||+|+.+++++....  ....+..+..   .. .+....
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~---~~-~~~~~~   81 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSA--NLPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNAS---DE-RGISIV   81 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCT--TCCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSS---SC-CCHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCChHHHHHHHHHHHcCCcccccchhheecc---cc-ccchHH
Confidence            455677999999999999999754  334478999999999999999999764321  1112221111   11 222222


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-C
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-G  331 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~  331 (709)
                      ...+-....... ..   .....+......+.-++|+|+++..  .....+...+........+|+|+.+. ...... .
T Consensus        82 ~~~~~~~~~~~~-~~---~~~~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~s  157 (237)
T d1sxjd2          82 REKVKNFARLTV-SK---PSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLAS  157 (237)
T ss_dssp             TTHHHHHHHSCC-CC---CCTTHHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHH
T ss_pred             HHHHHHHhhhhh-hh---hhHHHHhhccccCceEEEEecccccCHHHHHHHhhccccccccccccccccccccccccccc
Confidence            222211111111 00   1122233333444557999999642  23333333333334566677666543 222221 1


Q ss_pred             cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       332 ~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ....+++.+++.++..+++...+....-  .-..+..+.|++.++|.+
T Consensus       158 r~~~i~f~~~~~~~~~~~L~~i~~~e~i--~i~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         158 QCSKFRFKALDASNAIDRLRFISEQENV--KCDDGVLERILDISAGDL  203 (237)
T ss_dssp             HSEEEECCCCCHHHHHHHHHHHHHTTTC--CCCHHHHHHHHHHTSSCH
T ss_pred             hhhhhccccccccccchhhhhhhhhhcC--cCCHHHHHHHHHHcCCCH
Confidence            2367899999999999999877643322  122456788999998865

>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=98.52  E-value=3.4e-07  Score=88.85  Aligned_cols=180  Identities=15%  Similarity=0.204  Sum_probs=108.4

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      |.....+||.++.++.|.+++..+.  ...+.++|++|+||||+|+.+++.+... +...+...+.   +.. .+.....
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~---~~~-~~~~~~~   83 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNA---SDD-RGIDVVR   83 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECT---TSC-CSHHHHH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC--CCeEEEECCCCCChhHHHHHHHHHhhcCCCcceeEEecc---ccc-CCeeeee
Confidence            4455779999999999999997543  3346799999999999999999976432 2222222211   111 2222221


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchh-hhhh-cCc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKT-ILER-YGT  332 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~-~~~  332 (709)
                      ............              ..++.-++|+|+++..  ..-..++..+......+.++++|.... +... ...
T Consensus        84 ~~~~~~~~~~~~--------------~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr  149 (227)
T d1sxjc2          84 NQIKDFASTRQI--------------FSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQ  149 (227)
T ss_dssp             THHHHHHHBCCS--------------SSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTT
T ss_pred             cchhhccccccc--------------cCCCeEEEEEeccccchhhHHHHHHHHhhhcccceeeccccCcHHHhHHHHHHH
Confidence            111111111100              1223458899999643  333444444444456778888776642 2221 223


Q ss_pred             ceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+.+.+++.++-.+++.+.+.....  .-..+..+.|++.++|..
T Consensus       150 ~~~i~~~~~~~~~i~~~l~~I~~~e~i--~i~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         150 CTRFRFQPLPQEAIERRIANVLVHEKL--KLSPNAEKALIELSNGDM  194 (227)
T ss_dssp             SEEEECCCCCHHHHHHHHHHHHHTTTC--CBCHHHHHHHHHHHTTCH
T ss_pred             Hhhhccccccccccccccccccccccc--cCCHHHHHHHHHHcCCcH
Confidence            467899999999999988876633221  122356788999999975

>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=98.50  E-value=3.1e-07  Score=90.13  Aligned_cols=194  Identities=14%  Similarity=0.128  Sum_probs=112.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRN  257 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~  257 (709)
                      |..-..++|.+..++.|..++..+. -.+.+.|+|++|+||||+|+.+++.+.......         ... ........
T Consensus         8 P~~~~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~---------~~~-~~~~~~~~   76 (239)
T d1njfa_           8 PQTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATP-CGVCDNCR   76 (239)
T ss_dssp             CSSGGGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC---------SSC-CSCSHHHH
T ss_pred             CCCHHHccChHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCccccc---------cCc-cccchHHH
Confidence            3455779999999999999987542 245688999999999999999988754321100         000 00111111


Q ss_pred             HHHHHhcCCCCC--CCCCChhHHHHHHH--------ccCceEEEecCCCCh--hhhhhhhcCCCCCCCCeEEEEEcCchh
Q 005191          258 QVLSKLLGENFD--IGTPKIPQYIRDRL--------QRMKVFIVLDDVNKY--GQLEYFDGGLDRFGPGSRIIVTTRDKT  325 (709)
Q Consensus       258 ~ll~~l~~~~~~--~~~~~~~~~l~~~L--------~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~~gsrIIvTTR~~~  325 (709)
                      .+...-......  ..+....+.+++.+        .++.-++|||+++..  +....|+..+.....++++|++|.+..
T Consensus        77 ~i~~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~  156 (239)
T d1njfa_          77 EIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQ  156 (239)
T ss_dssp             HHHHTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGG
T ss_pred             HHHcCCCCeEEEecchhcCCHHHHHHHHHHHHhccccCCCEEEEEECcccCCHHHHHHHHHHHhcCCCCeEEEEEcCCcc
Confidence            111110000000  00011223333322        134568999999753  333445555444456778887776652


Q ss_pred             -hhhhc-CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch-HHHH
Q 005191          326 -ILERY-GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL-ALQV  384 (709)
Q Consensus       326 -v~~~~-~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL-AL~~  384 (709)
                       +.... +....+.+.+++.++-.+.+.+.+-....  ....+.++.|++.++|.+- |+..
T Consensus       157 ~i~~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~--~~~~~~l~~i~~~s~Gd~R~ain~  216 (239)
T d1njfa_         157 KLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHI--AHEPRALQLLARAAEGSLRDALSL  216 (239)
T ss_dssp             GSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC--CBCHHHHHHHHHHTTTCHHHHHHH
T ss_pred             ccChhHhhhhcccccccCcHHHhhhHHHHHHhhhcc--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence             22221 23367899999999998888776633222  1223567889999999885 4443

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.49  E-value=4.3e-07  Score=89.43  Aligned_cols=196  Identities=12%  Similarity=0.143  Sum_probs=101.6

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEee----------
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMAN----------  241 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~~----------  241 (709)
                      |...+.++|.+...+.|..++.... ....+.|+|++|+||||+|+.+++.+...      .+...+...          
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCCeEEEECCCCCCHHHHHHHHHHhhcCccccccccccccccccccchhhhhhc
Confidence            4455679999998898988876442 23446799999999999999999875211      111111100          


Q ss_pred             -------ecccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh--hhhhhhhcCCCCCC
Q 005191          242 -------VREESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY--GQLEYFDGGLDRFG  312 (709)
Q Consensus       242 -------~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~--~~~~~l~~~l~~~~  312 (709)
                             ....... .................. ..    ....-......+.-++|||+++..  +....+...+....
T Consensus        86 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-~~----~~~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          86 SSPYHLEITPSDMG-NNDRIVIQELLKEVAQME-QV----DFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             ECSSEEEECCC-----CCHHHHHHHHHHHTTTT-C----------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             cCCccceeeecccc-cCCcceeeehhhhhhhhh-hh----hhhhcccccCCCceEEEeccccccccccchhhhccccccc
Confidence                   0000000 000111111111110000 00    000001112234558999999763  33333433333335


Q ss_pred             CCeEEEEEcCchh-hhhh-cCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH
Q 005191          313 PGSRIIVTTRDKT-ILER-YGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       313 ~gsrIIvTTR~~~-v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA  381 (709)
                      ..+++|+||.+.. +... .+....+++.+++.++..+.+...+-... ..-..++..+.|++.+.|.+-.
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~-~~~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNER-IQLETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CEECCSHHHHHHHHHHTTCHHH
T ss_pred             ccccceeeeccccchhhhhhcchheeeecccchhhHHHHHHHHHHHcC-CCCCcHHHHHHHHHHcCCcHHH
Confidence            6677777776542 2111 11225789999999999998876552221 1111235678899999998753

>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=98.43  E-value=5.9e-07  Score=87.45  Aligned_cols=181  Identities=18%  Similarity=0.205  Sum_probs=106.6

Q ss_pred             CCCCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecccccccCCHHHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVREESEKCGGLVHLR  256 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~~~~~~~~l~~l~  256 (709)
                      |.....++|.+...+.|..++..+  ..+.+.|+|++|+||||+|+.+++.+... +.......+....    .+...+.
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~--~~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~----~~~~~~~   93 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTG--SMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDE----RGINVIR   93 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHT--CCCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCH----HHHHTTH
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcC--CCCeEEEECCCCCcHHHHHHHHHHHHHhcccCCCeeEEecCcc----cchhHHH
Confidence            445678999999999999999855  34567899999999999999999876432 2222222211111    0011111


Q ss_pred             HHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCch-hhhhhc-Cc
Q 005191          257 NQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDK-TILERY-GT  332 (709)
Q Consensus       257 ~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~-~v~~~~-~~  332 (709)
                      ...........              ....++.++++|+++.  ......+...+........+|.||... .+.... +.
T Consensus        94 ~~~~~~~~~~~--------------~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR  159 (231)
T d1iqpa2          94 EKVKEFARTKP--------------IGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSR  159 (231)
T ss_dssp             HHHHHHHHSCC--------------GGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHT
T ss_pred             HHHHHHHhhhh--------------ccCCCceEEeehhhhhcchhHHHHHhhhcccCCcceEEEeccCChhhchHhHhCc
Confidence            11111111000              0123567899999854  333444443333334455666665443 332222 23


Q ss_pred             ceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch
Q 005191          333 HRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL  380 (709)
Q Consensus       333 ~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL  380 (709)
                      ...+.+.+.+..+....+.+.+.....  ....+..+.|++.++|..-
T Consensus       160 ~~~i~~~~~~~~~~~~~l~~~~~~e~i--~i~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         160 CAIFRFRPLRDEDIAKRLRYIAENEGL--ELTEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             EEEEECCCCCHHHHHHHHHHHHHTTTC--EECHHHHHHHHHHHTTCHH
T ss_pred             cccccccccchhhHHHHHHHHHHHhCC--CCCHHHHHHHHHHcCCCHH
Confidence            367899999999999888877633221  2234567889999998754

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.28  E-value=1.2e-06  Score=91.68  Aligned_cols=150  Identities=15%  Similarity=0.148  Sum_probs=87.3

Q ss_pred             CCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc------ccceEEEeeecccccc---cCCH
Q 005191          182 DGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK------FEGKYFMANVREESEK---CGGL  252 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~------f~~~~~v~~~~~~~~~---~~~l  252 (709)
                      +.+|||+.+++++...|.....  .-+.|+|++|+|||+|+..+++++...      .+..+|..++...-..   ....
T Consensus        22 d~~~gr~~ei~~~~~~L~r~~k--~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~g~~   99 (387)
T d1qvra2          22 DPVIGRDEEIRRVIQILLRRTK--NNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEF   99 (387)
T ss_dssp             CCCCSCHHHHHHHHHHHHCSSC--CCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------CH
T ss_pred             CCCcCcHHHHHHHHHHHhcCCC--CCCeEECCCCCCHHHHHHHHHHHHHhCCCCHHHcCceEEEeeHhhhhcccCcchhH
Confidence            4589999999999999985422  234678999999999999999876443      2356666644332111   0111


Q ss_pred             HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHcc-CceEEEecCCCCh----------hhhhhhhcCCCCCCCCeEEEEEc
Q 005191          253 VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQR-MKVFIVLDDVNKY----------GQLEYFDGGLDRFGPGSRIIVTT  321 (709)
Q Consensus       253 ~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~-kr~LLVLDdv~~~----------~~~~~l~~~l~~~~~gsrIIvTT  321 (709)
                      ..-+.                   ..+.+.... .+++|++|++...          +..+-|.+.+.  ...-++|.+|
T Consensus       100 e~r~~-------------------~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~--rg~~~~I~~t  158 (387)
T d1qvra2         100 EERLK-------------------AVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA--RGELRLIGAT  158 (387)
T ss_dssp             HHHHH-------------------HHHHHHHTTCSSEEEEECCC-------------------HHHHH--TTCCCEEEEE
T ss_pred             HHHHH-------------------HHHHHhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHh--CCCcceeeec
Confidence            11111                   112222222 4789999999642          11222333332  2345677777


Q ss_pred             Cchhhhhhc------CcceEEEecCCChHHHHHHhhhcc
Q 005191          322 RDKTILERY------GTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       322 R~~~v~~~~------~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ...+.....      ...+.+.+.+.+.+++.+++....
T Consensus       159 T~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         159 TLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             CHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             CHHHHHHhcccHHHHHhcccccCCCCcHHHHHHHHHHHH
Confidence            666543211      123678999999999999987554

>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=98.26  E-value=2.9e-06  Score=83.39  Aligned_cols=191  Identities=16%  Similarity=0.164  Sum_probs=102.0

Q ss_pred             CCCCCCccccchhhhHHHhhhhc---------------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeee
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAI---------------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANV  242 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~---------------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~  242 (709)
                      |.....++|.+..+++|.+++..               +....+.+.++|++|+||||+|+.+++.+...    ++..+.
T Consensus        10 P~~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~~~----~~~~~~   85 (253)
T d1sxja2          10 PTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELGYD----ILEQNA   85 (253)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTTCE----EEEECT
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHhhhhcchhhhhhhcccCCCCCceEEEECCCCCCHHHHHHHHHHHHHhh----hhcccc
Confidence            34467899999999999998742               12235789999999999999999999875432    222222


Q ss_pred             cccccccCCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh-----hhhhhhhcCCCCCCCCeEE
Q 005191          243 REESEKCGGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY-----GQLEYFDGGLDRFGPGSRI  317 (709)
Q Consensus       243 ~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~-----~~~~~l~~~l~~~~~gsrI  317 (709)
                      ...    .... ................... ...........+..++++|+++..     ..+..+.....  .....+
T Consensus        86 ~~~----~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~i  157 (253)
T d1sxja2          86 SDV----RSKT-LLNAGVKNALDNMSVVGYF-KHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPL  157 (253)
T ss_dssp             TSC----CCHH-HHHHTGGGGTTBCCSTTTT-TC----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCE
T ss_pred             ccc----hhhH-HHHHHHHHHhhcchhhhhh-hhhhhcccccccceEEEeeeccccccchhhhhHHHhhhhc--cccccc
Confidence            211    1111 1222112111110000000 011111122346788999998532     12223322111  112234


Q ss_pred             EEEcCc--hhhhhh-cCcceEEEecCCChHHHHHHhhhcccccC-CCChhhHHHHHHHHHHhcCCc-hHHH
Q 005191          318 IVTTRD--KTILER-YGTHRIYEVEGLNCNEALRLFCSCAFKEN-HCPEDLLKHSETAAHYAKGNP-LALQ  383 (709)
Q Consensus       318 IvTTR~--~~v~~~-~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~~Iv~~~gGlP-LAL~  383 (709)
                      ++|+.+  ...... ......+++.+++.++-...+...+-... ..+   .+..+.|++.++|.. -||.
T Consensus       158 i~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~---~~~l~~i~~~s~GDiR~ai~  225 (253)
T d1sxja2         158 ILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD---PNVIDRLIQTTRGDIRQVIN  225 (253)
T ss_dssp             EEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC---TTHHHHHHHHTTTCHHHHHH
T ss_pred             ccccccccccccccccceeeeeeccccchhHHHHHHHHHHHHhCCCCC---HHHHHHHHHhCCCcHHHHHH
Confidence            444322  222222 23447899999999998888877653222 112   245788999999976 4443

>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=98.23  E-value=9.2e-06  Score=77.48  Aligned_cols=176  Identities=11%  Similarity=0.063  Sum_probs=99.4

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCC
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENF  268 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~  268 (709)
                      ...+.+...+..+. -.+.+.++|++|+||||+|+.+++.+...-..         .... .+...-...+.........
T Consensus         9 ~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~---------~~~~-~~~~~~~~~i~~~~~~~~~   77 (207)
T d1a5ta2           9 PDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQ---------GHKS-CGHCRGCQLMQAGTHPDYY   77 (207)
T ss_dssp             HHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCB---------TTBC-CSCSHHHHHHHHTCCTTEE
T ss_pred             HHHHHHHHHHHcCC-cCeEEEEECCCCCcHHHHHHHHHHhccccccc---------cccc-ccccchhhhhhhccccccc
Confidence            34566666665332 25668899999999999999999865321100         0000 0000001111111100000


Q ss_pred             ----CCCCCC-hhHH---HHHHH-----ccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hhhhc-C
Q 005191          269 ----DIGTPK-IPQY---IRDRL-----QRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-ILERY-G  331 (709)
Q Consensus       269 ----~~~~~~-~~~~---l~~~L-----~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~~-~  331 (709)
                          ...... ..+.   +.+.+     .+++-++|+||++.  .+....++..+.....++.+|+||++.. +.... +
T Consensus        78 ~~~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~S  157 (207)
T d1a5ta2          78 TLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRS  157 (207)
T ss_dssp             EECCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHT
T ss_pred             hhhhhhcccccccchhhHHhhhhhhccccCccceEEechhhhhhhhhhHHHHHHHHhhcccceeeeeecChhhhhhhhcc
Confidence                000000 1222   22222     23566999999975  4455666666665567888888887753 33322 2


Q ss_pred             cceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHH
Q 005191          332 THRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLAL  382 (709)
Q Consensus       332 ~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL  382 (709)
                      .-..+.+.+++.++....+....    ..   ..+.+..+++.++|.|-.+
T Consensus       158 Rc~~i~~~~~~~~~~~~~L~~~~----~~---~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         158 RCRLHYLAPPPEQYAVTWLSREV----TM---SQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             TSEEEECCCCCHHHHHHHHHHHC----CC---CHHHHHHHHHHTTTCHHHH
T ss_pred             eeEEEecCCCCHHHHHHHHHHcC----CC---CHHHHHHHHHHcCCCHHHH
Confidence            33688999999999999886543    11   2355788899999998644

>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=98.21  E-value=5.7e-06  Score=81.86  Aligned_cols=172  Identities=16%  Similarity=0.195  Sum_probs=98.6

Q ss_pred             CccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCC
Q 005191          183 GLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGG  251 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~  251 (709)
                      .++|.+...++|.+.+..           +-...+-+.++|++|+|||++|+.+++.....    ++............+
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~----~~~i~~~~l~~~~~g   80 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKLAG   80 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCE----EEEECHHHHTTSCTT
T ss_pred             hhccHHHHHHHHHHHHHHHhcCHHHHHhCCCCCCceeEEecCCCCCchHHHHHHHHHhCCe----EEEEEchhhcccccc
Confidence            477888887777775321           22235778999999999999999999875433    222211111110000


Q ss_pred             H-HHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh-------------hhhhhhcCC--CCCCCCe
Q 005191          252 L-VHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG-------------QLEYFDGGL--DRFGPGS  315 (709)
Q Consensus       252 l-~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~-------------~~~~l~~~l--~~~~~gs  315 (709)
                      . ...                   +...+...-..++++|++||++...             ....+....  .....+.
T Consensus        81 ~~~~~-------------------l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~v  141 (258)
T d1e32a2          81 ESESN-------------------LRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHV  141 (258)
T ss_dssp             HHHHH-------------------HHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCE
T ss_pred             cHHHH-------------------HHHHHHHHHhcCCeEEEehhhhhhccCCCCCCCchHHHHHHHhccccccccccCCc
Confidence            0 000                   2222233335689999999996421             011111111  1223455


Q ss_pred             EEEEEcCchhhhh-hc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCch
Q 005191          316 RIIVTTRDKTILE-RY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPL  380 (709)
Q Consensus       316 rIIvTTR~~~v~~-~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPL  380 (709)
                      -||.||....... ..    ..++.++++..+.++-.++|.....+... .+.  .....|++.+.|.--
T Consensus       142 lvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~-~~~--~~~~~la~~t~G~s~  208 (258)
T d1e32a2         142 IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKL-ADD--VDLEQVANETHGHVG  208 (258)
T ss_dssp             EEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCB-CTT--CCHHHHHHHCTTCCH
T ss_pred             cEEEeCCCccccchhhhhcccccceeECCCCCHHHHHHHhhhhccCccc-ccc--cchhhhhhcccCCCH
Confidence            6677887764322 11    24588999999999999999877633221 111  125678888888643

>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=98.12  E-value=5.5e-06  Score=81.70  Aligned_cols=172  Identities=16%  Similarity=0.130  Sum_probs=96.5

Q ss_pred             CCccccchhhhHHHhhh---hc-------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCC
Q 005191          182 DGLIGLESHVEQVRSLL---AI-------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGG  251 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L---~~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~  251 (709)
                      ..++|.++..++|.+.+   ..       +....+.+.++|++|+|||++|+.+++.....    ++..........   
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~---   84 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEM---   84 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTS---
T ss_pred             HHHhchHHHHHHHHHHHHHHHCHHHHHHcCCCCCCeEEeeCCCCCCccHHHHHHHHHcCCC----EEEEEhHHhhhc---
Confidence            56788887777776543   21       12235778899999999999999999876422    222212111110   


Q ss_pred             HHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCCh------------hh----hhhhhcCCC--CCC
Q 005191          252 LVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKY------------GQ----LEYFDGGLD--RFG  312 (709)
Q Consensus       252 l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~------------~~----~~~l~~~l~--~~~  312 (709)
                                     ... .... +...+...-+..|++|+|||++..            ..    +..++..+.  ...
T Consensus        85 ---------------~~g-~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~  148 (256)
T d1lv7a_          85 ---------------FVG-VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGN  148 (256)
T ss_dssp             ---------------CCC-CCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSS
T ss_pred             ---------------chh-HHHHHHHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCCCC
Confidence                           000 0001 222233333567899999999421            11    122322221  113


Q ss_pred             CCeEEEEEcCchhhh-hhc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          313 PGSRIIVTTRDKTIL-ERY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       313 ~gsrIIvTTR~~~v~-~~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      .+.-||.||..+... ...    .-++.+.+++.+.++-.+++....-+.....   ......+++.+.|..
T Consensus       149 ~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~---~~~~~~la~~t~G~s  217 (256)
T d1lv7a_         149 EGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP---DIDAAIIARGTPGFS  217 (256)
T ss_dssp             SCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT---TCCHHHHHHTCTTCC
T ss_pred             CCEEEEEeCCCcccCCHhHcCCCCCCEEEECCCcCHHHHHHHHHHhccCCCcCc---ccCHHHHHHhCCCCC
Confidence            445566688765433 222    2457899999999999999887763322111   112466777888764

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.10  E-value=3.9e-06  Score=82.39  Aligned_cols=174  Identities=15%  Similarity=0.156  Sum_probs=94.3

Q ss_pred             CCCCccccchhhhHHHhhhh---c-------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc
Q 005191          180 DSDGLIGLESHVEQVRSLLA---I-------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC  249 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~---~-------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~  249 (709)
                      .-+.++|-++..++|.+.+.   .       +....+-+.++|++|+|||+||+.+++.....    ++..+........
T Consensus         7 ~~~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~----~~~i~~~~l~~~~   82 (247)
T d1ixza_           7 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP----FITASGSDFVEMF   82 (247)
T ss_dssp             CGGGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC----EEEEEHHHHHHSC
T ss_pred             cHHHHccHHHHHHHHHHHHHHHHCHHHHHHcCCCCCceEEEecCCCCChhHHHHHHHHHcCCC----EEEEEhHHhhhcc
Confidence            34568888877766655331   1       12235678999999999999999999875322    2222111111000


Q ss_pred             CC-HHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCC--
Q 005191          250 GG-LVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDR--  310 (709)
Q Consensus       250 ~~-l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~--  310 (709)
                      .+ ....                   +...+...-...+++|+|||++...                .+..++..+..  
T Consensus        83 ~g~~~~~-------------------l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~  143 (247)
T d1ixza_          83 VGVGAAR-------------------VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE  143 (247)
T ss_dssp             TTHHHHH-------------------HHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCC
T ss_pred             ccHHHHH-------------------HHHHHHHHHHcCCEEEEEEChhhhCccCCCCCCCCcHHHHHHHHHHHHHhhCCC
Confidence            00 0000                   1111222224578999999985210                12223222211  


Q ss_pred             CCCCeEEEEEcCchhhh-hhc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCc
Q 005191          311 FGPGSRIIVTTRDKTIL-ERY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNP  379 (709)
Q Consensus       311 ~~~gsrIIvTTR~~~v~-~~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlP  379 (709)
                      ...+.-||.||...... ..+    .-.+.+++++.+.++-.+++............   .....+++.|.|..
T Consensus       144 ~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~---~~~~~la~~t~g~s  214 (247)
T d1ixza_         144 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED---VDLALLAKRTPGFV  214 (247)
T ss_dssp             TTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT---CCHHHHHHTCTTCC
T ss_pred             CCCCEEEEEeCCCccccCHhHcCCCCCcEEEEECCcCHHHHHHHHHHHhcccCCccc---cCHHHHHHHCCCCC
Confidence            12333444577655322 222    24578999999999999999877643221111   11456777777753

>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=98.09  E-value=5.4e-06  Score=82.34  Aligned_cols=174  Identities=16%  Similarity=0.170  Sum_probs=97.8

Q ss_pred             CCccccchhhhHHHhhhhc-----------cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccC
Q 005191          182 DGLIGLESHVEQVRSLLAI-----------GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCG  250 (709)
Q Consensus       182 ~~~vGR~~el~~L~~~L~~-----------~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~  250 (709)
                      ..++|.++..++|.+.+..           +-...+-|.++|++|+|||+||+.++.....+    ++.........   
T Consensus         7 ~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~l~~---   79 (265)
T d1r7ra3           7 EDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN----FISIKGPELLT---   79 (265)
T ss_dssp             SSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHHHHT---
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhCCCCCCCeEEEECCCCCcchhHHHHHHHHhCCc----EEEEEHHHhhh---
Confidence            4578888887777765521           22335678899999999999999999986433    23321111100   


Q ss_pred             CHHHHHHHHHHHhcCCCCCCCCCC-hhHHHHHHHccCceEEEecCCCChh----------------hhhhhhcCCCCC--
Q 005191          251 GLVHLRNQVLSKLLGENFDIGTPK-IPQYIRDRLQRMKVFIVLDDVNKYG----------------QLEYFDGGLDRF--  311 (709)
Q Consensus       251 ~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~~~L~~kr~LLVLDdv~~~~----------------~~~~l~~~l~~~--  311 (709)
                                     .... .... +...+...-...+++|+|||++...                ....++..+...  
T Consensus        80 ---------------~~~~-~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~  143 (265)
T d1r7ra3          80 ---------------MWFG-ESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMST  143 (265)
T ss_dssp             ---------------SCTT-THHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC----
T ss_pred             ---------------cccc-chHHHHHHHHHHHHhcCCcceeHHhhhhccccCCCcCCCCcHHHHHHHHHHHHHhhCcCC
Confidence                           0000 0000 2222333334678999999996211                123344444321  


Q ss_pred             CCCeEEEEEcCchhhh-hhc----CcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchH
Q 005191          312 GPGSRIIVTTRDKTIL-ERY----GTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLA  381 (709)
Q Consensus       312 ~~gsrIIvTTR~~~v~-~~~----~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLA  381 (709)
                      .++.-||.||...... ..+    .....+++++.+.++-.++|.....+ .....  ......+++++.|...+
T Consensus       144 ~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~-~~~~~--~~~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         144 KKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRK-SPVAK--DVDLEFLAKMTNGFSGA  215 (265)
T ss_dssp             --CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTC-C------CCCCHHHHHHHCSSCCH
T ss_pred             CCCEEEEEeCCCchhCCHHHhCCCCccEEEEecchHHHHHHHHHHHHhcc-CCchh--hhhHHHHHhcCCCCCHH
Confidence            2345667777665432 221    24578999999999999999866522 11111  11246777888876543

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.03  E-value=2.2e-05  Score=75.05  Aligned_cols=151  Identities=16%  Similarity=0.182  Sum_probs=85.4

Q ss_pred             Cccccchhh--hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHH
Q 005191          183 GLIGLESHV--EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVL  260 (709)
Q Consensus       183 ~~vGR~~el--~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll  260 (709)
                      .++|-..++  ..+.++.....+....+.|+|++|+|||.|++++++.........+++.           .......+.
T Consensus        12 F~vg~~N~~a~~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~-----------~~~~~~~~~   80 (213)
T d1l8qa2          12 FIVGEGNRLAYEVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-----------ADDFAQAMV   80 (213)
T ss_dssp             CCCCTTTHHHHHHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-----------HHHHHHHHH
T ss_pred             ccCCCcHHHHHHHHHHHHhCcCCCCCcEEEECCCCCcHHHHHHHHHHHhccCccceEEec-----------hHHHHHHHH
Confidence            345664443  3334444432233345789999999999999999999877766666665           112333333


Q ss_pred             HHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCCh---hhhhh-hhcCCCC-CCCCeEEEEEcCchh---------h
Q 005191          261 SKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKY---GQLEY-FDGGLDR-FGPGSRIIVTTRDKT---------I  326 (709)
Q Consensus       261 ~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~---~~~~~-l~~~l~~-~~~gsrIIvTTR~~~---------v  326 (709)
                      ..+...        ....+.+.++ .--+|+|||++..   ..|+. +...+.. ...|..||+||+...         +
T Consensus        81 ~~~~~~--------~~~~~~~~~~-~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL  151 (213)
T d1l8qa2          81 EHLKKG--------TINEFRNMYK-SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRL  151 (213)
T ss_dssp             HHHHHT--------CHHHHHHHHH-TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHH
T ss_pred             HHHHcc--------chhhHHHHHh-hccchhhhhhhhhcCchHHHHHHHHHHHHHhhccceEEEecCCcchhccccchHH
Confidence            333211        1122233333 3458999999642   23332 2211111 136778999998652         1


Q ss_pred             hhhcCcceEEEecCCChHHHHHHhhhcc
Q 005191          327 LERYGTHRIYEVEGLNCNEALRLFCSCA  354 (709)
Q Consensus       327 ~~~~~~~~~~~L~~L~~~ea~~Lf~~~a  354 (709)
                      ...+....++.++ ++.++-.+++.+.+
T Consensus       152 ~SRL~~g~~~~i~-p~d~~~~~iL~~~a  178 (213)
T d1l8qa2         152 VSRFEGGILVEIE-LDNKTRFKIIKEKL  178 (213)
T ss_dssp             HHHHHTSEEEECC-CCHHHHHHHHHHHH
T ss_pred             HHHhhCceEEEEC-CCcHHHHHHHHHHH
Confidence            1222344677785 47777777777666

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=97.98  E-value=4e-05  Score=74.94  Aligned_cols=51  Identities=20%  Similarity=0.094  Sum_probs=36.4

Q ss_pred             CCCccccchhhhHHHhhhh-------c-cCCCceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          181 SDGLIGLESHVEQVRSLLA-------I-GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       181 ~~~~vGR~~el~~L~~~L~-------~-~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      ..++||..+.++.+.+-..       . .....+-|.++|++|+|||++|+.+++....
T Consensus         8 ~~~~i~~~~~i~~i~~~~~~~~~~~~~~~~~p~~~vLL~GppGtGKT~la~alA~~~~~   66 (246)
T d1d2na_           8 MNGIIKWGDPVTRVLDDGELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNF   66 (246)
T ss_dssp             TTCCCCCSHHHHHHHHHHHHHHHHHHHCSSCSEEEEEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             ccCCcCcCHHHHHHHHHHHHHHHHHhccCCCCCeEEEEECcCCCCHHHHHHHHhhcccc
Confidence            3558888776665554332       1 1123577899999999999999999987543

>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=97.94  E-value=3e-05  Score=75.25  Aligned_cols=177  Identities=15%  Similarity=0.077  Sum_probs=96.9

Q ss_pred             CCCCCCccccchhhhHHHhhhhcc---CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHH
Q 005191          178 ISDSDGLIGLESHVEQVRSLLAIG---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVH  254 (709)
Q Consensus       178 ~~~~~~~vGR~~el~~L~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~  254 (709)
                      |..-+.+||-+.-.++|..++...   ....+-+.++|++|+||||+|+.+++.....|   .... ....    ... .
T Consensus         5 P~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~~---~~~~-~~~~----~~~-~   75 (239)
T d1ixsb2           5 PKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVNL---RVTS-GPAI----EKP-G   75 (239)
T ss_dssp             CCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCCE---EEEE-TTTC----CSH-H
T ss_pred             CCCHHHhCCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCe---Eecc-CCcc----ccc-h
Confidence            334567999998888888887642   22356778999999999999999998754332   1111 1100    111 1


Q ss_pred             HHHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChh--hhhhhhcCC--------C----------CCCCC
Q 005191          255 LRNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYG--QLEYFDGGL--------D----------RFGPG  314 (709)
Q Consensus       255 l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~--~~~~l~~~l--------~----------~~~~g  314 (709)
                      .....                   +...+ +.+.++++|+++...  .-+.+....        .          ...+.
T Consensus        76 ~~~~~-------------------~~~~~-~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~  135 (239)
T d1ixsb2          76 DLAAI-------------------LANSL-EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPR  135 (239)
T ss_dssp             HHHHH-------------------HHTTC-CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCC
T ss_pred             hhHHH-------------------HHhhc-cCCCeeeeecccccchhHHHhhhhhhhhhhhhhhhccchhhhhcccCCCC
Confidence            11111                   11111 223466678775321  111111000        0          00123


Q ss_pred             eEEEEEc-Cchhh--hhhcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHHH
Q 005191          315 SRIIVTT-RDKTI--LERYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQVL  385 (709)
Q Consensus       315 srIIvTT-R~~~v--~~~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~l  385 (709)
                      ..++.+| +....  .........+.+...+.++..+++...+.....  ....+....|++.++|.+-....+
T Consensus       136 ~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i--~~~~~~l~~ia~~s~gd~R~a~~~  207 (239)
T d1ixsb2         136 FTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV--RITEEAALEIGRRSRGTMRVAKRL  207 (239)
T ss_dssp             CEEEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC--CBCHHHHHHHHHHTTSSHHHHHHH
T ss_pred             EEEEeeccCcccccchhhcccceeeEeeccChhhhhHHHHHHHHHhCC--ccchHHHHHHHHHcCCCHHHHHHH
Confidence            3344444 43321  111223467889999999988887766633321  223457889999999987655433

>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=97.91  E-value=3.2e-05  Score=74.97  Aligned_cols=174  Identities=16%  Similarity=0.107  Sum_probs=97.4

Q ss_pred             CCCCCccccchhhhHHHhhhhcc---CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHH
Q 005191          179 SDSDGLIGLESHVEQVRSLLAIG---LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHL  255 (709)
Q Consensus       179 ~~~~~~vGR~~el~~L~~~L~~~---~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l  255 (709)
                      ..-+.+||-+..++.|..++...   ....+-+.++|++|+||||+|+.+++.+...|   ..+. ....    .....+
T Consensus         6 ~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~---~~~~-~~~~----~~~~~~   77 (238)
T d1in4a2           6 KSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI---HVTS-GPVL----VKQGDM   77 (238)
T ss_dssp             SSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCE---EEEE-TTTC----CSHHHH
T ss_pred             CcHHHcCChHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCcHHHHHHHHHhccCCCc---cccc-Cccc----ccHHHH
Confidence            34567999999999999888532   22345678999999999999999998765432   1121 1111    111111


Q ss_pred             HHHHHHHhcCCCCCCCCCChhHHHHHHHccCceEEEecCCCChhh--hhhh---hcC---------------CCCCCCCe
Q 005191          256 RNQVLSKLLGENFDIGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQ--LEYF---DGG---------------LDRFGPGS  315 (709)
Q Consensus       256 ~~~ll~~l~~~~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~--~~~l---~~~---------------l~~~~~gs  315 (709)
                       ..++..                     ..++..+++|.++....  -+.+   ...               .....+..
T Consensus        78 -~~~~~~---------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (238)
T d1in4a2          78 -AAILTS---------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPF  135 (238)
T ss_dssp             -HHHHHH---------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCC
T ss_pred             -HHHHHh---------------------hccCCchHHHHHHHhhhHHHhhcccceeeeeeeeeecCcccccccccCCCCe
Confidence             111111                     23445666676643210  0000   000               00011234


Q ss_pred             EEEEEcCch-hhhh--hcCcceEEEecCCChHHHHHHhhhcccccCCCChhhHHHHHHHHHHhcCCchHHHH
Q 005191          316 RIIVTTRDK-TILE--RYGTHRIYEVEGLNCNEALRLFCSCAFKENHCPEDLLKHSETAAHYAKGNPLALQV  384 (709)
Q Consensus       316 rIIvTTR~~-~v~~--~~~~~~~~~L~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~Iv~~~gGlPLAL~~  384 (709)
                      .+|.+|... ....  .......+.+++.+.++...++...+.....  ....+.+..+++.++|.+-.+..
T Consensus       136 ~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~~~~l~~i~~~s~gd~R~ai~  205 (238)
T d1in4a2         136 TLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDV--EIEDAAAEMIAKRSRGTPRIAIR  205 (238)
T ss_dssp             EEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTC--CBCHHHHHHHHHTSTTCHHHHHH
T ss_pred             EEEEecCCCccccccceeeeeEEEEecCCCHHHHHHHHHHhhhhccc--hhhHHHHHHHHHhCCCCHHHHHH
Confidence            455555444 2221  1223467799999999999998876633322  22345688889999998765543

>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=97.12  E-value=0.00089  Score=62.67  Aligned_cols=130  Identities=12%  Similarity=0.032  Sum_probs=76.4

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc---ccceEEEeeecccccccCCHHHHHHHHHHHhcCC
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK---FEGKYFMANVREESEKCGGLVHLRNQVLSKLLGE  266 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~---f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~  266 (709)
                      +++.+.+++..+  ....+.++|++|+|||++|..+.+.+...   .+...++..-   ... -++.++. .+...+...
T Consensus         2 ~~~~l~~~i~~~--~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~---~~~-I~Id~IR-~i~~~~~~~   74 (198)
T d2gnoa2           2 QLETLKRIIEKS--EGISILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDPE---GEN-IGIDDIR-TIKDFLNYS   74 (198)
T ss_dssp             HHHHHHHHHHTC--SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECCS---SSC-BCHHHHH-HHHHHHTSC
T ss_pred             HHHHHHHHHhcC--CCceEEEECCCCCCHHHHHHHHHHHHhccccCCCCEEEEeCC---cCC-CCHHHHH-HHHHHHhhC
Confidence            456677777644  57899999999999999999999865432   2344444311   111 2333332 344443222


Q ss_pred             CCCCCCCChhHHHHHHHccCceEEEecCCCC--hhhhhhhhcCCCCCCCCeEEEEEcCchh-hhhhc-CcceEEEecCC
Q 005191          267 NFDIGTPKIPQYIRDRLQRMKVFIVLDDVNK--YGQLEYFDGGLDRFGPGSRIIVTTRDKT-ILERY-GTHRIYEVEGL  341 (709)
Q Consensus       267 ~~~~~~~~~~~~l~~~L~~kr~LLVLDdv~~--~~~~~~l~~~l~~~~~gsrIIvTTR~~~-v~~~~-~~~~~~~L~~L  341 (709)
                      ..               .+++=++|+|+++.  .+...+++..+.....++.+|++|.+.. +.+.. +.-..+.+.+.
T Consensus        75 ~~---------------~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p  138 (198)
T d2gnoa2          75 PE---------------LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVP  138 (198)
T ss_dssp             CS---------------SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCC
T ss_pred             cc---------------cCCCEEEEEeCccccchhhhhHHHHHHhCCCCCceeeeccCChhhCHHHHhcceEEEeCCCc
Confidence            11               23445899999974  4566677766655567788777776653 33322 12245566543

>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=96.74  E-value=0.00057  Score=61.97  Aligned_cols=36  Identities=17%  Similarity=0.082  Sum_probs=28.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEE
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFM  239 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v  239 (709)
                      +..+|.|+|++|+||||+|+.+++++...| +...++
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~   41 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLL   41 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHhhcCCCchhhh
Confidence            457899999999999999999999986654 333343

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.61  E-value=0.0012  Score=60.94  Aligned_cols=40  Identities=20%  Similarity=0.207  Sum_probs=31.0

Q ss_pred             cCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          201 GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       201 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+.-+|+|.|.+|+||||||+.+.+.+...........
T Consensus        18 ~~~~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_          18 KTAGRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             CCSSSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHHHhccccccceecc
Confidence            3456778999999999999999999988766554444443

>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=96.54  E-value=0.00055  Score=62.41  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=23.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++.|+|.|++|+||||||+.+++++
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHHh
Confidence            5789999999999999999999875

>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=96.49  E-value=0.00049  Score=61.31  Aligned_cols=24  Identities=33%  Similarity=0.376  Sum_probs=21.6

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.|.|.|++|+||||+|+.++.++
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~L   26 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQL   26 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHh
Confidence            458888999999999999999986

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.45  E-value=0.0011  Score=59.58  Aligned_cols=29  Identities=21%  Similarity=0.306  Sum_probs=25.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      .++++|+|.+|+|||||+.++.+.+..+.
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g   30 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARG   30 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTT
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHCC
Confidence            36899999999999999999999876653

>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=96.44  E-value=0.00084  Score=60.99  Aligned_cols=28  Identities=29%  Similarity=0.242  Sum_probs=24.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      +.|.|+|++|+|||||+++++..+..+.
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l~~~~   29 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             cEEEEECCCCCcHHHHHHHHHHHHHHCC
Confidence            5689999999999999999999876553

>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=96.41  E-value=0.00081  Score=62.04  Aligned_cols=36  Identities=22%  Similarity=0.143  Sum_probs=29.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+|.|+|++|+||||+|+.++.++...+....++.
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCCccchh
Confidence            568889999999999999999998877666555543

>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=96.31  E-value=0.00089  Score=60.20  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++|.|.|++|+||||+|+.++..+
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHc
Confidence            679999999999999999998764

>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=96.20  E-value=0.0012  Score=58.25  Aligned_cols=23  Identities=26%  Similarity=0.356  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ++|.|+|++|+||||||+++..+
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            57889999999999999988664

>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=96.10  E-value=0.0016  Score=58.56  Aligned_cols=27  Identities=30%  Similarity=0.479  Sum_probs=24.4

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+++.|.|++|+||||+|+.++.++
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999999999876

>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=96.10  E-value=0.0012  Score=59.45  Aligned_cols=24  Identities=25%  Similarity=0.313  Sum_probs=21.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..|.|.|++|+||||+|+.+++++
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~~l   28 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELASKS   28 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
Confidence            347799999999999999999875

>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=96.06  E-value=0.0014  Score=59.06  Aligned_cols=26  Identities=19%  Similarity=0.293  Sum_probs=23.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .++|.|.|++|+||||+|+.+++++.
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHSS
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHcC
Confidence            46899999999999999999998753

>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=96.05  E-value=0.0025  Score=61.98  Aligned_cols=30  Identities=20%  Similarity=0.303  Sum_probs=25.4

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +.++.|.++|++|+||||||+.++..+...
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHhhcc
Confidence            346789999999999999999999976543

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.00  E-value=0.0024  Score=57.99  Aligned_cols=28  Identities=21%  Similarity=0.432  Sum_probs=25.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ++|+|.|++|+||||+++.+++++....
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~l~~~~   29 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDNLRKEG   29 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            6899999999999999999999876554

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=95.99  E-value=0.011  Score=55.29  Aligned_cols=91  Identities=20%  Similarity=0.104  Sum_probs=51.3

Q ss_pred             CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCCC-hhHHHH
Q 005191          202 LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTPK-IPQYIR  280 (709)
Q Consensus       202 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~~-~~~~l~  280 (709)
                      .+.+.++.++|+.|+||||.+..++.++..+- ..+.+...... .  .+..+-++.....++-......+.+ ....++
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~~g-~kV~lit~Dt~-R--~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~   81 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQG-KSVMLAAGDTF-R--AAAVEQLQVWGQRNNIPVIAQHTGADSASVIF   81 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHTTT-CCEEEECCCTT-C--HHHHHHHHHHHHHTTCCEECCSTTCCHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCC-CcEEEEecccc-c--ccchhhhhhhhhhcCCcccccccCCCHHHHHH
Confidence            34578999999999999998888888776443 34444322111 1  1123334444555544433333333 555554


Q ss_pred             HHHc----cCceEEEecCCC
Q 005191          281 DRLQ----RMKVFIVLDDVN  296 (709)
Q Consensus       281 ~~L~----~kr~LLVLDdv~  296 (709)
                      +...    +..=++++|=.-
T Consensus        82 ~~~~~a~~~~~d~ilIDTaG  101 (211)
T d2qy9a2          82 DAIQAAKARNIDVLIADTAG  101 (211)
T ss_dssp             HHHHHHHHTTCSEEEECCCC
T ss_pred             HHHHHHHHcCCCEEEeccCC
Confidence            4332    233478888773

>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=95.98  E-value=0.0054  Score=61.45  Aligned_cols=26  Identities=23%  Similarity=0.303  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ..++.++|++|+|||.||+.+++.+.
T Consensus        53 ~~~~lf~Gp~G~GKt~lak~la~~l~   78 (315)
T d1qvra3          53 IGSFLFLGPTGVGKTELAKTLAATLF   78 (315)
T ss_dssp             SEEEEEBSCSSSSHHHHHHHHHHHHH
T ss_pred             ceEEEEECCCcchHHHHHHHHHHHhc
Confidence            34788999999999999999999764

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=95.82  E-value=0.02  Score=53.36  Aligned_cols=89  Identities=17%  Similarity=0.089  Sum_probs=49.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCCCCCC-ChhHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFDIGTP-KIPQYIRD  281 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~~~~~-~~~~~l~~  281 (709)
                      ++.+++.++|+.|+||||.+..++.++..+-..+.++. ... . . .+-.+-++.....++......... +....+.+
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit-~Dt-~-R-~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~   79 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA-GDT-F-R-AAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYD   79 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC-CCC-S-S-TTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEE-ecc-c-c-ccchhhHhhcccccCceEEeccCCccHHHHHHH
Confidence            35689999999999999998888887665434444443 211 1 1 334445555555555443322222 24444433


Q ss_pred             HH----ccCceEEEecCC
Q 005191          282 RL----QRMKVFIVLDDV  295 (709)
Q Consensus       282 ~L----~~kr~LLVLDdv  295 (709)
                      ..    .+..=++++|=.
T Consensus        80 ~~~~~~~~~~d~ilIDTa   97 (207)
T d1okkd2          80 AVQAMKARGYDLLFVDTA   97 (207)
T ss_dssp             HHHHHHHHTCSEEEECCC
T ss_pred             HHHHHHHCCCCEEEcCcc
Confidence            22    123346666765

>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=95.76  E-value=0.0026  Score=57.23  Aligned_cols=26  Identities=27%  Similarity=0.323  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..-.|.|.|++|+||||+|+.+++++
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHh
Confidence            44568899999999999999998874

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.74  E-value=0.0036  Score=56.25  Aligned_cols=28  Identities=18%  Similarity=0.082  Sum_probs=25.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ++++|+|..|+|||||+.++...++.+-
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g   29 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREG   29 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHhCC
Confidence            5899999999999999999999887663

>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=95.74  E-value=0.0022  Score=57.68  Aligned_cols=24  Identities=25%  Similarity=0.361  Sum_probs=20.3

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      |.+.|++|+||||+++.+++++.-
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~   27 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGV   27 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCC
Confidence            445699999999999999998743

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=95.74  E-value=0.014  Score=54.75  Aligned_cols=39  Identities=23%  Similarity=0.267  Sum_probs=30.3

Q ss_pred             CCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          202 LPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       202 ~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ...+.++.++|+.|+||||.+..++.++..+-..+..+.
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit   46 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA   46 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEe
Confidence            456789999999999999988888887765544555554

>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=95.73  E-value=0.002  Score=58.00  Aligned_cols=26  Identities=31%  Similarity=0.292  Sum_probs=22.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.++|.|.|++|+||||+|+.+++++
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            35799999999999999999987753

>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=95.71  E-value=0.0032  Score=58.11  Aligned_cols=27  Identities=26%  Similarity=0.342  Sum_probs=24.0

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.+.+|.|.|++|+||||+|+.+++++
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            457899999999999999999998864

>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=95.68  E-value=0.0043  Score=57.67  Aligned_cols=28  Identities=21%  Similarity=0.201  Sum_probs=24.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +-+|.++|.+|+||||||+++++.+...
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4578999999999999999999876544

>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=95.64  E-value=0.0025  Score=57.22  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=20.3

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.||+|+||||+++.++.++
T Consensus         3 I~liG~~GsGKsTi~k~La~~l   24 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDL   24 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6778999999999999999986

>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=95.56  E-value=0.0037  Score=62.53  Aligned_cols=26  Identities=27%  Similarity=0.296  Sum_probs=22.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+.+.++||+|+|||.||+.+++...
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~~~   74 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKLAN   74 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             CceEEEECCCCCCHHHHHHHHhhccc
Confidence            46677899999999999999998754

>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=95.54  E-value=0.0054  Score=55.77  Aligned_cols=28  Identities=21%  Similarity=0.330  Sum_probs=24.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ++|.|.|++|+||||+++.+++++..+.
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~   29 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQG   29 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHHHcC
Confidence            5789999999999999999999876553

>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=95.53  E-value=0.0037  Score=57.78  Aligned_cols=27  Identities=22%  Similarity=0.357  Sum_probs=24.3

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +..++|.|.|++|+||||+|+.+++++
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            467899999999999999999998864

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=95.52  E-value=0.022  Score=53.11  Aligned_cols=38  Identities=21%  Similarity=0.177  Sum_probs=24.9

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ..+.+|.++|+.|+||||.+..++.++..+-..+..+.
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   47 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVG   47 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHHTTCCEEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCceEEEE
Confidence            35789999999999999988888887665433444444

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=95.51  E-value=0.021  Score=53.22  Aligned_cols=37  Identities=30%  Similarity=0.270  Sum_probs=28.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.+++.++|++|+||||.+..++.++..+-..+..+.
T Consensus         9 ~~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit   45 (207)
T d1ls1a2           9 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA   45 (207)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4688999999999999999888887766544444443

>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=95.44  E-value=0.0028  Score=57.33  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .|.|.|++|+||||+|+.+++++.
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHT
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhC
Confidence            466889999999999999998863

>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=95.37  E-value=0.013  Score=58.33  Aligned_cols=49  Identities=18%  Similarity=0.051  Sum_probs=31.3

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      .+||..+...+.+.|... ..-.++.++|+||+|||.||+.++..+..++
T Consensus       103 v~~~~~~~~~~~~~~~~~-~~~g~~l~~G~pG~GKT~la~ala~~~~~~~  151 (321)
T d1w44a_         103 TGELVGCSPVVAEFGGHR-YASGMVIVTGKGNSGKTPLVHALGEALGGKD  151 (321)
T ss_dssp             CTTCCSBCCEEEEETTEE-EESEEEEEECSSSSCHHHHHHHHHHHHHTTS
T ss_pred             hccccccchHHHHHhhcc-cCCceEEEECCCCccHHHHHHHHHHHhcCCC
Confidence            345554444444444211 1124566789999999999999999876544

>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=95.35  E-value=0.0034  Score=57.09  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHH
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +.+.+|.++|++|+||||+|+.++..
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            45789999999999999999987654

>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=95.33  E-value=0.0042  Score=56.09  Aligned_cols=25  Identities=28%  Similarity=0.520  Sum_probs=22.0

Q ss_pred             EEEEccCCCchhHHHHHHHHHhhhc
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      |+|+|++|+|||||++.++..+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCcHHHHHHHHHHhcCCCC
Confidence            7899999999999999999876543

>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=95.27  E-value=0.0071  Score=57.62  Aligned_cols=47  Identities=17%  Similarity=0.186  Sum_probs=37.6

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      |.+.|..+-+...++.|+|.+|+|||+||.+++.....+....+|+.
T Consensus        15 LD~~l~GGi~~gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          15 LDEMCGGGFFKDSIILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             HHHHTTSSEESSCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             HHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhccccceee
Confidence            44445544445789999999999999999999998877777788876

>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=95.19  E-value=0.0067  Score=56.89  Aligned_cols=31  Identities=19%  Similarity=0.163  Sum_probs=26.3

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      .+..+|.++|++|.||||||+++..++...+
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~l~~~~   52 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQLVRDR   52 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            3568999999999999999999998875443

>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=94.98  E-value=0.016  Score=58.00  Aligned_cols=41  Identities=20%  Similarity=0.225  Sum_probs=31.1

Q ss_pred             hHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          192 EQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       192 ~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .++.+.+.....+..+|+|+|+||+|||||..++...+...
T Consensus        38 ~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~   78 (323)
T d2qm8a1          38 RDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAA   78 (323)
T ss_dssp             HHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHhhhccCCceEEeeeCCCCCCHHHHHHHHHHHHhhc
Confidence            34444444445568999999999999999999999876543

>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=94.97  E-value=0.0057  Score=57.34  Aligned_cols=25  Identities=24%  Similarity=0.371  Sum_probs=22.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .++|+|.|++|+||||+|+.+++++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHh
Confidence            3599999999999999999999985

>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=94.90  E-value=0.011  Score=57.51  Aligned_cols=48  Identities=29%  Similarity=0.326  Sum_probs=36.1

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|...|. .+-+..+++-|+|++|+||||||.+++...+..-...+|+.
T Consensus        41 ~lD~~Lg~GGi~~g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          41 SLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             HHHHHTSSSSEETTSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHHhcCCCccCceEEEEecCCCcHHHHHHHHHHHHHHcCCCEEEEEc
Confidence            3444453 23244689999999999999999999988777666677776

>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=94.89  E-value=0.0077  Score=56.35  Aligned_cols=27  Identities=22%  Similarity=0.394  Sum_probs=23.8

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +-+|+|.|.+|+||||+|+.+.+.+..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~l~~   28 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQLLGQ   28 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHhch
Confidence            468999999999999999999987654

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=94.79  E-value=0.016  Score=56.38  Aligned_cols=49  Identities=20%  Similarity=0.265  Sum_probs=35.4

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ++..+.+.+.  .++.++|.++|-||+||||+|..++..+...-..+..+.
T Consensus         7 ~~~~~~~~~~--~~~~~iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD   55 (279)
T d1ihua2           7 SLSALVDDIA--RNEHGLIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTT   55 (279)
T ss_dssp             CHHHHHHHHH--TTSCEEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             cHHHHHHHhh--cCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEe
Confidence            4555566555  347899999999999999999998887766533334333

>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=94.77  E-value=0.018  Score=57.64  Aligned_cols=47  Identities=15%  Similarity=0.048  Sum_probs=33.6

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      ++.+.+....++..+|+|+|++|+|||||...+...+......+..+
T Consensus        42 ~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavl   88 (327)
T d2p67a1          42 QLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVI   88 (327)
T ss_dssp             HHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             HHHHHhhhccCCceEEEeeCCCCCCHHHHHHHHHHHHHhcCCceeee
Confidence            33333433445689999999999999999999988776654333333

>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=94.70  E-value=0.0083  Score=55.11  Aligned_cols=24  Identities=25%  Similarity=0.369  Sum_probs=21.8

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+|.|.|++|+||||+|+.+++++
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998864

>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=94.60  E-value=0.0071  Score=55.76  Aligned_cols=27  Identities=33%  Similarity=0.479  Sum_probs=22.6

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      .|+|.|++|+|||||++.++++....|
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~   28 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIF   28 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTE
T ss_pred             eEEEECCCCCCHHHHHHHHHHhCCCce
Confidence            478999999999999999988754443

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=94.56  E-value=0.014  Score=56.66  Aligned_cols=34  Identities=29%  Similarity=0.414  Sum_probs=27.0

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      +.|+|+|-||+||||+|..++..+...-..+..+
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllI   35 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVV   35 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             CEEEEECCCcCCHHHHHHHHHHHHHhCCCcEEEE
Confidence            6899999999999999999999877653333333

>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=94.53  E-value=0.0071  Score=55.48  Aligned_cols=29  Identities=31%  Similarity=0.564  Sum_probs=23.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhccc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFE  234 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~  234 (709)
                      |.|.|+|++|+|||||++.++++....|.
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~   30 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFG   30 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEE
T ss_pred             CeEEEECCCCCCHHHHHHHHHHhCCccee
Confidence            45889999999999999999887655443

>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=94.49  E-value=0.011  Score=54.21  Aligned_cols=25  Identities=40%  Similarity=0.498  Sum_probs=21.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +.++| |.|++|+||||+|+.+++++
T Consensus         3 ~~rii-l~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           3 GVRAV-LLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             CCEEE-EECCTTSSHHHHHHHHHHHH
T ss_pred             ccEEE-EECCCCCCHHHHHHHHHHHh
Confidence            45666 67999999999999998864

>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=94.44  E-value=0.0086  Score=54.86  Aligned_cols=25  Identities=24%  Similarity=0.204  Sum_probs=21.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +-.|.|.|++|+||||+|+.+++++
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3457799999999999999998875

>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=94.36  E-value=0.01  Score=55.72  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=21.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHHh
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +|+|-|++|+||||+|+.++.++
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57899999999999999999875

>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=94.30  E-value=0.01  Score=53.74  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=20.0

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.++.++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6799999999999999998875

>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=94.26  E-value=0.033  Score=54.01  Aligned_cols=48  Identities=27%  Similarity=0.291  Sum_probs=36.4

Q ss_pred             HHHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          193 QVRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .|...|. .+-+..+++-|+|++|+|||+||.+++...+..-...+|+.
T Consensus        47 ~lD~~lg~gG~~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID   95 (269)
T d1mo6a1          47 ALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFID   95 (269)
T ss_dssp             HHHHHTSSSSBCSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE
T ss_pred             HHHHhhccCCcccceeEEEecCCCcHHHHHHHHHHHHHhcCCCEEEEEE
Confidence            3444453 34456789999999999999999999887666656677877

>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=94.14  E-value=0.011  Score=53.88  Aligned_cols=30  Identities=17%  Similarity=0.453  Sum_probs=24.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEG  235 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~  235 (709)
                      +.|.|+|++|+|||||++++..+....|..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~   33 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKHPDRFAY   33 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHCTTTEEC
T ss_pred             CcEEEECCCCCCHHHHHHHHHHhCCcCeee
Confidence            578999999999999999988875555543

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.12  E-value=0.016  Score=59.03  Aligned_cols=49  Identities=24%  Similarity=0.237  Sum_probs=33.6

Q ss_pred             ccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          184 LIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       184 ~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +.|-+..+.+..+.+..+.+..+.+.++|++|+|||++|..+++.+...
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             ccchHHHHHHHHHHHHhCCCCcCeEEEECCCCCCHHHHHHHHHHHcCCC
Confidence            3333333333333333455667899999999999999999999976543

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=94.10  E-value=0.044  Score=53.11  Aligned_cols=54  Identities=20%  Similarity=0.322  Sum_probs=35.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEeeecccccccCCHHHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMANVREESEKCGGLVHLRNQVLSK  262 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~~~~~~~~~~~~l~~l~~~ll~~  262 (709)
                      .+-++|.|.+|+|||+|+..+++.....- +..+|. .+++..   ....++.+.+...
T Consensus        68 GQr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~-~iGer~---~ev~~~~~~~~~~  122 (276)
T d2jdid3          68 GGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA-GVGERT---REGNDLYHEMIES  122 (276)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEE-EESCCH---HHHHHHHHHHHHH
T ss_pred             CCEEEeeCCCCCCHHHHHHHHHHHHHhhCCCeEEEE-EeccCh---HHHHHHHHHHHhc
Confidence            35689999999999999999998754433 344444 344332   2345555665553

>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=94.00  E-value=0.014  Score=53.75  Aligned_cols=26  Identities=19%  Similarity=0.354  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+|.|.|++|+||||+|+.+++++
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            45789999999999999999998864

>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=93.95  E-value=0.013  Score=53.12  Aligned_cols=22  Identities=32%  Similarity=0.306  Sum_probs=20.0

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.+++++
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6788999999999999999875

>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=93.92  E-value=0.016  Score=53.26  Aligned_cols=25  Identities=28%  Similarity=0.452  Sum_probs=20.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .-.|.|.|++|+||||+|+.+++++
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             ceeEEEECCCCCCHHHHHHHHHHHH
Confidence            3345577999999999999998864

>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=93.89  E-value=0.014  Score=53.09  Aligned_cols=22  Identities=27%  Similarity=0.542  Sum_probs=20.1

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.+++++
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            6789999999999999999875

>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=93.80  E-value=0.017  Score=53.29  Aligned_cols=38  Identities=21%  Similarity=0.215  Sum_probs=28.1

Q ss_pred             HhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          195 RSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       195 ~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      -.+|..+-+..+++.|.|++|+|||+||.+++......
T Consensus        13 D~ll~GGi~~G~v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          13 DKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             HHHTTTSEETTSEEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             HHhhcCCCcCCEEEEEEeCCCCCHHHHHHHHHHHHHHh
Confidence            34443332346899999999999999999998865433

>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=93.75  E-value=0.039  Score=52.29  Aligned_cols=35  Identities=20%  Similarity=0.274  Sum_probs=28.0

Q ss_pred             hhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          196 SLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       196 ~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ++|..+=+..+++.|+|++|+|||++|.+++....
T Consensus        28 ~~lgGGip~G~~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          28 KLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             HHTTSSBCSSEEEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             HhhcCCCcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            44444445678999999999999999999987643

>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=93.71  E-value=0.016  Score=52.69  Aligned_cols=24  Identities=25%  Similarity=0.450  Sum_probs=21.4

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ++|.|+|++|+|||||++.+..+.
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578999999999999999887764

>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=93.56  E-value=0.021  Score=54.30  Aligned_cols=35  Identities=26%  Similarity=0.349  Sum_probs=27.6

Q ss_pred             hhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          196 SLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       196 ~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+|..+=+..+++.|.|++|+|||++|.+++....
T Consensus        27 ~ll~GGlp~G~~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          27 KLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             HHHTSSEESSEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HhhcCCccCCEEEEEEcCCCCCHHHHHHHHHHHhh
Confidence            34443334578999999999999999999988654

>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=93.34  E-value=0.019  Score=51.98  Aligned_cols=22  Identities=32%  Similarity=0.368  Sum_probs=19.1

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.+++++
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            4467999999999999998874

>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=93.31  E-value=0.039  Score=52.82  Aligned_cols=46  Identities=15%  Similarity=0.113  Sum_probs=36.7

Q ss_pred             CccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          183 GLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .|||....++++.+.+..-.....-|.|.|..|+|||++|+.+.+.
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHh
Confidence            3789999999888888754333345789999999999999998764

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.31  E-value=0.031  Score=54.65  Aligned_cols=33  Identities=21%  Similarity=0.292  Sum_probs=27.1

Q ss_pred             cCCCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          201 GLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       201 ~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ....+-+|+|.|..|+||||||..+...+...+
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~   55 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKY   55 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHHHHHHHHh
Confidence            334467999999999999999999988776653

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=93.31  E-value=0.032  Score=54.47  Aligned_cols=37  Identities=19%  Similarity=0.243  Sum_probs=29.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .++++.++|-||+||||+|..++..+..+-..+..++
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCeEEEEECCCcChHHHHHHHHHHHHHHCCCCEEEEe
Confidence            4789999999999999999999998776644444444

>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=93.24  E-value=0.02  Score=51.65  Aligned_cols=22  Identities=23%  Similarity=0.363  Sum_probs=19.6

Q ss_pred             EEEEccCCCchhHHHHHHHHHh
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      |.|.|++|+||||+|+.+++++
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~   24 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKY   24 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999998764

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.23  E-value=0.066  Score=52.08  Aligned_cols=50  Identities=14%  Similarity=0.014  Sum_probs=33.2

Q ss_pred             HHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEEeeecc
Q 005191          194 VRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFMANVRE  244 (709)
Q Consensus       194 L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v~~~~~  244 (709)
                      +++.|.. -...+.++|.|.+|+|||+|+.++++....+ -..++++..+++
T Consensus        33 ~ID~l~P-igrGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~ige   83 (289)
T d1xpua3          33 VLDLASP-IGRGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDE   83 (289)
T ss_dssp             HHHHHSC-CBTTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEE
T ss_pred             eeeeccc-ccCCCeeeEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEeece
Confidence            4444442 1235678999999999999999999876544 344445443433

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=93.23  E-value=0.034  Score=54.41  Aligned_cols=36  Identities=25%  Similarity=0.438  Sum_probs=27.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .+.|+|+|-||+||||+|..++..+...-..+..+.
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID   37 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             ccEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEe
Confidence            367889999999999999999887766533333343

>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=93.20  E-value=0.04  Score=54.84  Aligned_cols=47  Identities=17%  Similarity=0.198  Sum_probs=34.4

Q ss_pred             CccccchhhhHHHhhhh-------ccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          183 GLIGLESHVEQVRSLLA-------IGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       183 ~~vGR~~el~~L~~~L~-------~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .++|-+.-++.+...+.       ..+....++.++|++|+|||.||+.+++-+
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l   76 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL   76 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             eecChHHHHHHHHHHHHHHHccCCCCCCCceEEEEECCCcchhHHHHHHHHhhc
Confidence            57777777776665542       111224578899999999999999999865

>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=93.07  E-value=0.047  Score=52.85  Aligned_cols=47  Identities=28%  Similarity=0.307  Sum_probs=34.5

Q ss_pred             HHhhhh-ccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          194 VRSLLA-IGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       194 L~~~L~-~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      |-..|. .+-+..+++-|+|++|+|||+||.+++...+..=..++|++
T Consensus        45 lD~~Lg~GGip~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD   92 (268)
T d1xp8a1          45 LDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID   92 (268)
T ss_dssp             HHHHTSSSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             HHHHhcCCCccCceEEEEecCCccchHHHHHHHHHHHHhCCCEEEEEE
Confidence            334443 23345689999999999999999999887665545567776

>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=92.91  E-value=0.046  Score=54.01  Aligned_cols=31  Identities=26%  Similarity=0.191  Sum_probs=26.6

Q ss_pred             CCceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          203 PDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       203 ~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      ..+-+|+|.|.+|+||||+|+.+...+...+
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~  108 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWP  108 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTST
T ss_pred             CCCEEEEEeCCCCCCCcHHHHHHHHHHhhhc
Confidence            3478999999999999999999998876543

>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=92.85  E-value=0.03  Score=52.37  Aligned_cols=48  Identities=25%  Similarity=0.231  Sum_probs=31.7

Q ss_pred             HHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcc-cceEEEe
Q 005191          193 QVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKF-EGKYFMA  240 (709)
Q Consensus       193 ~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f-~~~~~v~  240 (709)
                      .|-+.|..+-+...++.|.|.+|+|||+||.+++.....+- ....|+.
T Consensus        14 ~LD~~l~GGi~~G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          14 GFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             THHHHTTSSEETTSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             HHHHhhcCCCcCCeEEEEEeCCCCCHHHHHHHHHHHHHHhcCCCccccc
Confidence            34455543334568999999999999999998776533332 3344443

>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=92.76  E-value=0.024  Score=51.78  Aligned_cols=22  Identities=36%  Similarity=0.512  Sum_probs=19.4

Q ss_pred             ceEEEEEccCCCchhHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~  226 (709)
                      +-+|+|+|..|+||||+|..+-
T Consensus         3 p~IIgitG~~gSGKstva~~l~   24 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLR   24 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            5689999999999999998763

>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=92.72  E-value=0.035  Score=52.39  Aligned_cols=27  Identities=30%  Similarity=0.470  Sum_probs=22.8

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      +|+|.|+.|.|||||...+.+......
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~~~   28 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLEDNY   28 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTS
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHhhCC
Confidence            789999999999999999987654443

>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=92.71  E-value=0.027  Score=56.48  Aligned_cols=46  Identities=20%  Similarity=0.211  Sum_probs=32.5

Q ss_pred             CCCCccccchhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHH
Q 005191          180 DSDGLIGLESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       180 ~~~~~vGR~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +...++|.+.-...|.-....  .+..-+.|.|.+|+|||+||+.+..
T Consensus         5 ~f~~I~Gq~~~kral~laa~~--~~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           5 PFSAIVGQEDMKLALLLTAVD--PGIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CGGGSCSCHHHHHHHHHHHHC--GGGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             ChhhccCcHHHHHHHHHHHhc--cCCCeEEEECCCCccHHHHHHHHHH
Confidence            456789998665544432221  1234578999999999999999976

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=92.68  E-value=0.032  Score=54.47  Aligned_cols=29  Identities=17%  Similarity=0.355  Sum_probs=22.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +..+|+|.|.+|.||||+|+.+.+.+...
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHhhc
Confidence            45799999999999999999998876543

>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=92.60  E-value=0.024  Score=51.95  Aligned_cols=26  Identities=31%  Similarity=0.019  Sum_probs=22.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+-+|+|-|..|+||||+++.+.+.+
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHHh
Confidence            46689999999999999999877654

>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=92.60  E-value=0.049  Score=50.63  Aligned_cols=35  Identities=14%  Similarity=0.147  Sum_probs=27.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      ...|+|.|+.|+||||+++.+.+.+..+--.+.+.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEE
Confidence            36789999999999999999999886653333333

>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=92.45  E-value=0.052  Score=49.95  Aligned_cols=26  Identities=31%  Similarity=0.505  Sum_probs=23.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      .|+|-|+-|+||||+++.+.+.+..+
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58899999999999999999988654

>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=92.32  E-value=0.026  Score=53.19  Aligned_cols=35  Identities=17%  Similarity=0.245  Sum_probs=26.7

Q ss_pred             HhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          195 RSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       195 ~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      -.+|..+=+..+++.|.|.+|+|||+||.+++...
T Consensus        24 D~ll~GGi~~G~~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          24 DTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             HHHHTSSEESSSEEEEEESTTSSHHHHHHHHTTTT
T ss_pred             HhhhCCCCcCCeEEEEEcCCCCCHHHHHHHHHHHh
Confidence            34444333456899999999999999999987653

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=92.29  E-value=0.058  Score=50.44  Aligned_cols=35  Identities=29%  Similarity=0.309  Sum_probs=28.1

Q ss_pred             eEEEEE-ccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIW-GMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ++|+|+ |-||+||||+|..++..+..+-..+..+.
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEEECCCCCChHHHHHHHHHHHHHhCCCCEEEEe
Confidence            677877 89999999999999998877655555554

>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=92.27  E-value=0.037  Score=52.08  Aligned_cols=35  Identities=29%  Similarity=0.294  Sum_probs=26.8

Q ss_pred             hhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          196 SLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       196 ~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      ++|..+-+...++.|.|.+|+|||++|.+++....
T Consensus        25 ~ll~GGl~~G~l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          25 SVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             HHTTSSEETTEEEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             HhcCCCccCCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            44433233468999999999999999999987653

>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=92.26  E-value=0.039  Score=52.22  Aligned_cols=28  Identities=21%  Similarity=0.351  Sum_probs=24.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      +++.|+|-|+-|+||||+++.+.+.+..
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHhh
Confidence            4689999999999999999999887543

>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=92.20  E-value=0.037  Score=51.41  Aligned_cols=24  Identities=17%  Similarity=0.254  Sum_probs=21.5

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .++.|+|++|+|||||.+.+..+.
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~~   26 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKTQ   26 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhC
Confidence            578899999999999999988764

>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=91.54  E-value=0.12  Score=52.91  Aligned_cols=117  Identities=10%  Similarity=0.068  Sum_probs=66.8

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeecccccccCCHHHHHHHHHHHhcCCCCC
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKCGGLVHLRNQVLSKLLGENFD  269 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~~~l~~l~~~ll~~l~~~~~~  269 (709)
                      .++.+.+++..   ...+|.|.|+.|.||||....+.+.+...-...+-+.+--+.     .+...     .+..  ...
T Consensus       146 ~~~~l~~l~~~---~~GliLvtGpTGSGKSTTl~~~l~~~~~~~~~i~tiEdPiE~-----~~~~~-----~q~~--v~~  210 (401)
T d1p9ra_         146 NHDNFRRLIKR---PHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEF-----DIDGI-----GQTQ--VNP  210 (401)
T ss_dssp             HHHHHHHHHTS---SSEEEEEECSTTSCHHHHHHHHHHHHCCTTSCEEEEESSCCS-----CCSSS-----EEEE--CBG
T ss_pred             HHHHHHHHHhh---hhceEEEEcCCCCCccHHHHHHhhhhcCCCceEEEeccCccc-----ccCCC-----Ceee--ecC
Confidence            34455555542   357999999999999999999988764432232323211111     00000     0000  001


Q ss_pred             CCCCChhHHHHHHHccCceEEEecCCCChhhhhhhhcCCCCCCCCeEEEEEcCch
Q 005191          270 IGTPKIPQYIRDRLQRMKVFIVLDDVNKYGQLEYFDGGLDRFGPGSRIIVTTRDK  324 (709)
Q Consensus       270 ~~~~~~~~~l~~~L~~kr~LLVLDdv~~~~~~~~l~~~l~~~~~gsrIIvTTR~~  324 (709)
                      .........++..|+..+=+|++.++.+.+........-   ..|-.|+-|-...
T Consensus       211 ~~~~~~~~~l~~~lR~dPDvi~igEiRd~~ta~~a~~aa---~tGhlV~tTlHa~  262 (401)
T d1p9ra_         211 RVDMTFARGLRAILRQDPDVVMVGEIRDLETAQIAVQAS---LTGHLVMSTLHTN  262 (401)
T ss_dssp             GGTBCHHHHHHHHGGGCCSEEEESCCCSHHHHHHHHHHH---HTTCEEEEEECCS
T ss_pred             CcCCCHHHHHHHHHhhcCCEEEecCcCChHHHHHHHHHH---hcCCeEEEEeccC
Confidence            111226778888999999999999998877665554331   2454455444433

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=91.25  E-value=0.088  Score=49.21  Aligned_cols=35  Identities=26%  Similarity=0.392  Sum_probs=27.9

Q ss_pred             eEEEEE-ccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIW-GMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~-G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      ++|+|+ +-||+||||+|..++..+...-..+..+.
T Consensus         3 ~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             eEEEEECCCCCCcHHHHHHHHHHHHHhCCCCEEEEe
Confidence            688888 77999999999999998776644555554

>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=91.03  E-value=0.054  Score=47.07  Aligned_cols=21  Identities=29%  Similarity=0.227  Sum_probs=18.6

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|+|.+|+|||||...+...
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhcC
Confidence            679999999999999998763

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.99  E-value=0.064  Score=50.01  Aligned_cols=29  Identities=24%  Similarity=0.441  Sum_probs=25.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhc
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQK  232 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~  232 (709)
                      +...|+|-|+-|+||||+++.+.+.+..+
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~L~~~   30 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKKLQPN   30 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHHTTTS
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHHHHHhC
Confidence            35789999999999999999999887654

>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=90.34  E-value=0.077  Score=49.03  Aligned_cols=34  Identities=32%  Similarity=0.456  Sum_probs=27.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhc-ccceEEE
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQK-FEGKYFM  239 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~-f~~~~~v  239 (709)
                      +.|+|-|+.|+||||+++.+.+.+... +....+.
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~   37 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   37 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHhCCCCeEEEe
Confidence            578999999999999999999987654 4444443

>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=90.27  E-value=0.093  Score=46.63  Aligned_cols=23  Identities=22%  Similarity=0.322  Sum_probs=19.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..-|+|+|.+|+|||||..++..
T Consensus        13 ~~kI~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          13 TGKLVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             CEEEEEEEETTSSHHHHHHHHSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhC
Confidence            34577999999999999988754

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.26  E-value=0.041  Score=51.88  Aligned_cols=26  Identities=19%  Similarity=0.282  Sum_probs=22.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      .+.|+|-|+.|+||||+|+.+.+.+.
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHh
Confidence            47899999999999999998877653

>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=89.96  E-value=0.073  Score=46.55  Aligned_cols=22  Identities=36%  Similarity=0.345  Sum_probs=19.3

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|+|+|.+|+|||||...+...
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3779999999999999998764

>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=89.91  E-value=0.12  Score=52.16  Aligned_cols=25  Identities=24%  Similarity=0.283  Sum_probs=21.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ...+...|+.|+|||.||+.++...
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CcceeeeCCCCccHHHHHHHHHhhc
Confidence            4567888999999999999998764

>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=89.68  E-value=0.32  Score=46.58  Aligned_cols=53  Identities=9%  Similarity=0.091  Sum_probs=34.0

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHhhhccc-ceEEEeeecccccccCCHHHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQFSQKFE-GKYFMANVREESEKCGGLVHLRNQVLSKL  263 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~-~~~~v~~~~~~~~~~~~l~~l~~~ll~~l  263 (709)
                      ...++.|.|.+|+|||+++.+++..+..... .++++. ..      .....+...++...
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s-~E------~~~~~~~~r~~~~~   87 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM-LE------ESVEETAEDLIGLH   87 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE-SS------SCHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHhhhhhcccceeEee-ec------cchhhHHhHHHHHh
Confidence            3468899999999999999999877543323 333443 11      33445555555544

>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=89.50  E-value=0.083  Score=46.57  Aligned_cols=20  Identities=20%  Similarity=0.398  Sum_probs=18.2

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |++.|.+|+|||||+..+.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998876

>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=89.43  E-value=0.084  Score=50.03  Aligned_cols=24  Identities=29%  Similarity=0.389  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||++.++-
T Consensus        28 ~Ge~~~liG~sGaGKSTll~~i~g   51 (240)
T d1g2912          28 DGEFMILLGPSGCGKTTTLRMIAG   51 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            356999999999999999999875

>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=89.37  E-value=0.056  Score=49.93  Aligned_cols=25  Identities=32%  Similarity=0.440  Sum_probs=22.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...+++|.|+.|+|||||.+.++.-
T Consensus        26 ~Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          26 KGNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TTCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcc
Confidence            4578999999999999999999763

>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=89.22  E-value=0.081  Score=49.80  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=20.9

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|+|||||.+.++.
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          30 EGEFVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCcchhhHhccC
Confidence            457999999999999999997754

>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=89.20  E-value=0.09  Score=46.25  Aligned_cols=21  Identities=19%  Similarity=0.234  Sum_probs=18.9

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.+.|.+|+|||||+..+...
T Consensus         5 v~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            679999999999999999863

>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=89.20  E-value=0.089  Score=46.86  Aligned_cols=21  Identities=24%  Similarity=0.270  Sum_probs=18.6

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|+|.+|+|||+|+..+.+.
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHhcC
Confidence            678999999999999998763

>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=89.20  E-value=0.094  Score=48.47  Aligned_cols=20  Identities=35%  Similarity=0.451  Sum_probs=17.9

Q ss_pred             EEEEEccCCCchhHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVF  226 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~  226 (709)
                      +|+|+|+.|+||||.|+.+.
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCcCCHHHHHHHHH
Confidence            89999999999999998653

>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=89.16  E-value=0.098  Score=49.28  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        25 ~Gei~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          25 EGEFVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            457999999999999999998865

>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=89.15  E-value=0.091  Score=46.39  Aligned_cols=21  Identities=24%  Similarity=0.259  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |+|+|.+|+|||+|+..+.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999998763

>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=89.12  E-value=0.13  Score=45.64  Aligned_cols=24  Identities=21%  Similarity=0.264  Sum_probs=19.7

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ..--|+|+|.+|+|||||...+..
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHhc
Confidence            334577999999999999988755

>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=89.02  E-value=0.083  Score=50.04  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||++.++-
T Consensus        30 ~Ge~~~iiG~sGsGKSTLl~~i~G   53 (240)
T d3dhwc1          30 AGQIYGVIGASGAGKSTLIRCVNL   53 (240)
T ss_dssp             SSCEEEEEESTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcC
Confidence            457999999999999999998854

>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=89.00  E-value=0.1  Score=47.33  Aligned_cols=24  Identities=17%  Similarity=0.401  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +.+.|+|+|.+|+|||||...+..
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcC
Confidence            456799999999999999999975

>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=88.97  E-value=0.09  Score=48.47  Aligned_cols=20  Identities=50%  Similarity=0.621  Sum_probs=17.8

Q ss_pred             eEEEEEccCCCchhHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVV  225 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v  225 (709)
                      -+|+|+|..|+||||+|+.+
T Consensus         3 ~iIgITG~igSGKStv~~~l   22 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLF   22 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999865

>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=88.97  E-value=0.094  Score=50.18  Aligned_cols=24  Identities=33%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|+|+.|.|||||++.+..
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCChHHHHHHHHhc
Confidence            456899999999999999998865

>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=88.91  E-value=0.09  Score=49.90  Aligned_cols=24  Identities=29%  Similarity=0.552  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|+|+.|.|||||++.+..
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~g   51 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQR   51 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            357899999999999999999865

>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=88.79  E-value=0.11  Score=49.35  Aligned_cols=24  Identities=25%  Similarity=0.325  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|+|+.|.|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999865

>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=88.77  E-value=0.11  Score=49.19  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.+..
T Consensus        31 ~Ge~~~liGpsGaGKSTLl~~i~G   54 (239)
T d1v43a3          31 DGEFLVLLGPSGCGKTTTLRMIAG   54 (239)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCChHHHHHHHHHc
Confidence            457999999999999999999865

>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=88.56  E-value=0.11  Score=45.98  Aligned_cols=20  Identities=30%  Similarity=0.398  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.|.|.+|+|||+|+..+..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999999876

>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=88.50  E-value=0.13  Score=48.22  Aligned_cols=25  Identities=28%  Similarity=0.429  Sum_probs=22.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..++..|+|.-|.|||||.+++.+.
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            4689999999999999999988774

>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=88.42  E-value=0.11  Score=49.66  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|+|+.|.|||||++.+..
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457999999999999999998865

>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=88.42  E-value=0.11  Score=46.12  Aligned_cols=21  Identities=24%  Similarity=0.376  Sum_probs=18.9

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|.|.|.+|+|||+|...+.+
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~   27 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQ   27 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            367899999999999999886

>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=88.41  E-value=0.11  Score=45.84  Aligned_cols=21  Identities=29%  Similarity=0.544  Sum_probs=18.8

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|+|.+|+|||+|..++...
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999998864

>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=88.35  E-value=0.11  Score=50.39  Aligned_cols=25  Identities=24%  Similarity=0.441  Sum_probs=22.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ....++|+|+.|.|||||++.++.-
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCC
Confidence            4578999999999999999998764

>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=88.35  E-value=0.11  Score=45.99  Aligned_cols=20  Identities=25%  Similarity=0.242  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.++|.+|+|||||...+..
T Consensus         8 i~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            77999999999999998876

>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=88.34  E-value=0.11  Score=45.60  Aligned_cols=20  Identities=20%  Similarity=0.317  Sum_probs=18.3

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|.|.+|+|||+|+..+.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999999876

>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=88.30  E-value=0.1  Score=46.25  Aligned_cols=20  Identities=30%  Similarity=0.718  Sum_probs=18.0

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|.|.+|+|||||...+..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            56889999999999998876

>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=88.23  E-value=0.1  Score=50.06  Aligned_cols=24  Identities=25%  Similarity=0.328  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||++.+.-
T Consensus        27 ~GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          27 AGDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            457999999999999999999865

>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=88.18  E-value=0.12  Score=45.85  Aligned_cols=21  Identities=24%  Similarity=0.613  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.++|.+|+|||+|...+.+.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            568899999999999999874

>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=88.17  E-value=0.12  Score=48.94  Aligned_cols=23  Identities=17%  Similarity=0.274  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..++|.|+.|.|||||.+.++.-
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEEECCCCChHHHHHHHHHcC
Confidence            47889999999999999998763

>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=88.15  E-value=0.14  Score=45.89  Aligned_cols=24  Identities=29%  Similarity=0.198  Sum_probs=21.1

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+-|.|.|.+|+||||||.++..+
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            467889999999999999998875

>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=88.07  E-value=0.12  Score=45.81  Aligned_cols=20  Identities=15%  Similarity=0.327  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.|+|.+|+|||+|+..+.+
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999999886

>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=88.05  E-value=0.12  Score=45.71  Aligned_cols=21  Identities=29%  Similarity=0.344  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .|+|.|.+|+|||||..++..
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            689999999999999999874

>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=88.01  E-value=0.11  Score=45.69  Aligned_cols=20  Identities=30%  Similarity=0.343  Sum_probs=18.0

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|.|.+|+|||||...+..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHcC
Confidence            67999999999999998865

>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=87.93  E-value=0.12  Score=45.55  Aligned_cols=20  Identities=30%  Similarity=0.449  Sum_probs=18.2

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|+|.+|+|||||...+.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            66889999999999999876

>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=87.92  E-value=0.12  Score=45.95  Aligned_cols=22  Identities=23%  Similarity=0.425  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|.|.|.+|+|||+|...+.+
T Consensus         7 ~Kv~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           7 HKLVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHh
Confidence            3477999999999999998876

>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=87.86  E-value=0.2  Score=51.89  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=21.7

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..-|.+.||+|+|||-||+.++..+
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l   73 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLA   73 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             cccEEEECCCCCCHHHHHHHHHHHh
Confidence            3457889999999999999999865

>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=87.83  E-value=0.12  Score=45.77  Aligned_cols=20  Identities=40%  Similarity=0.521  Sum_probs=18.3

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|+|.+|+|||||...+..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHc
Confidence            77999999999999999875

>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=87.78  E-value=0.1  Score=49.03  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++-
T Consensus        25 ~Ge~~~liGpsGaGKSTll~~l~G   48 (229)
T d3d31a2          25 SGEYFVILGPTGAGKTLFLELIAG   48 (229)
T ss_dssp             TTCEEEEECCCTHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhc
Confidence            457999999999999999999875

>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=87.71  E-value=0.13  Score=44.44  Aligned_cols=22  Identities=27%  Similarity=0.373  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|+|+|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3679999999999999988763

>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=87.66  E-value=0.12  Score=45.81  Aligned_cols=20  Identities=30%  Similarity=0.494  Sum_probs=18.0

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|.|.+|+|||+|+..+..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCcCHHHHHHHHhC
Confidence            67899999999999998865

>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=87.59  E-value=0.11  Score=46.77  Aligned_cols=20  Identities=30%  Similarity=0.287  Sum_probs=18.0

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.|+|.+|+|||||+..+.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhc
Confidence            67899999999999998875

>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=87.58  E-value=0.13  Score=45.23  Aligned_cols=20  Identities=20%  Similarity=0.361  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.+.|.+|+|||||...+..
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998876

>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=87.54  E-value=0.13  Score=45.51  Aligned_cols=22  Identities=23%  Similarity=0.418  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|.|+|.+|+|||+|...+...
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            3778999999999999988763

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=87.47  E-value=0.24  Score=45.31  Aligned_cols=35  Identities=11%  Similarity=-0.020  Sum_probs=27.4

Q ss_pred             eEEEEEccC-CCchhHHHHHHHHHhhhcccceEEEe
Q 005191          206 RLVGIWGMG-GIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       206 ~vv~I~G~g-GiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      +.+.|+|-| |+||||++..++.-+..+-..+.++.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             ceEEEEECCCCccHHHHHHHHHHHHHHCCCeEEEEC
Confidence            457899998 99999999999998877644444444

>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=87.45  E-value=0.14  Score=45.23  Aligned_cols=21  Identities=24%  Similarity=0.522  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|+|.+|+|||+|...+...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHcC
Confidence            678999999999999998763

>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=87.43  E-value=0.14  Score=46.72  Aligned_cols=23  Identities=22%  Similarity=0.218  Sum_probs=20.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      +.|+|+|.+|+|||||...+...
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            47899999999999999998763

>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=87.41  E-value=0.14  Score=45.54  Aligned_cols=20  Identities=20%  Similarity=0.325  Sum_probs=18.3

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.+.|.+|+|||||+..+..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998875

>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=87.36  E-value=0.14  Score=45.14  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .-|+|.|.+|+|||+|...+..
T Consensus         5 ~Kv~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           5 RKIAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            4577899999999999999876

>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=87.35  E-value=0.14  Score=45.69  Aligned_cols=22  Identities=32%  Similarity=0.250  Sum_probs=18.9

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|.|.|.+|+|||+|...+.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCcCHHHHHHHHHhC
Confidence            3678899999999999988763

>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=87.30  E-value=0.15  Score=45.82  Aligned_cols=24  Identities=33%  Similarity=0.249  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|.|.|.+|+||||||.++..+
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHHc
Confidence            356889999999999999998764

>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=87.11  E-value=0.18  Score=50.03  Aligned_cols=87  Identities=17%  Similarity=0.217  Sum_probs=53.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEEeeeccccccc-CCHHHHHHHHHHHhcCCCCCCCCCChhHHHHHHHc
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMANVREESEKC-GGLVHLRNQVLSKLLGENFDIGTPKIPQYIRDRLQ  284 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~~~~~~~~~~-~~l~~l~~~ll~~l~~~~~~~~~~~~~~~l~~~L~  284 (709)
                      +-+.|.|..|.||||+...++..+-.. ...+-+.+..+..-.. ...        .++.    ...+....+.++..|+
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~-~rivtiEd~~El~l~~~~~~--------~~~~----~~~~~~~~~ll~~~lR  233 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKE-ERIISIEDTEEIVFKHHKNY--------TQLF----FGGNITSADCLKSCLR  233 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTT-CCEEEEESSCCCCCSSCSSE--------EEEE----CBTTBCHHHHHHHHTT
T ss_pred             CCEEEEeeccccchHHHHHHhhhcccc-cceeeccchhhhhccccccc--------ceec----cccchhHHHHHHHHhc
Confidence            347899999999999999988765433 2333443332221100 000        0000    0112236677888888


Q ss_pred             cCceEEEecCCCChhhhhhhh
Q 005191          285 RMKVFIVLDDVNKYGQLEYFD  305 (709)
Q Consensus       285 ~kr~LLVLDdv~~~~~~~~l~  305 (709)
                      ..+=.+|+..+.+.+.+..+.
T Consensus       234 ~~pd~iivgEiR~~ea~~~l~  254 (323)
T d1g6oa_         234 MRPDRIILGELRSSEAYDFYN  254 (323)
T ss_dssp             SCCSEEEESCCCSTHHHHHHH
T ss_pred             cCCCcccCCccCchhHHHHHH
Confidence            899999999998877776543

>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=87.03  E-value=0.15  Score=44.92  Aligned_cols=21  Identities=24%  Similarity=0.552  Sum_probs=18.7

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|.|.+|+|||+|...+...
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHhC
Confidence            678899999999999998863

>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=86.96  E-value=0.18  Score=47.02  Aligned_cols=32  Identities=19%  Similarity=0.513  Sum_probs=24.7

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHH
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +++|.++|.     .+..++.|.+|+|||||...+..
T Consensus        86 ~~~L~~~l~-----~kt~~~~G~SGVGKSTLiN~L~~  117 (225)
T d1u0la2          86 IEELKEYLK-----GKISTMAGLSGVGKSSLLNAINP  117 (225)
T ss_dssp             HHHHHHHHS-----SSEEEEECSTTSSHHHHHHHHST
T ss_pred             HhhHHHHhc-----CCeEEEECCCCCCHHHHHHhhcc
Confidence            566666664     24678899999999999988754

>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=86.91  E-value=0.18  Score=45.24  Aligned_cols=24  Identities=21%  Similarity=0.174  Sum_probs=20.3

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .--|.|.|.+|+|||+|..++...
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhC
Confidence            345789999999999999998764

>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=86.90  E-value=0.15  Score=45.04  Aligned_cols=20  Identities=30%  Similarity=0.350  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|+|.+|+|||+|+.++..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            78999999999999998876

>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=86.88  E-value=0.15  Score=45.33  Aligned_cols=20  Identities=25%  Similarity=0.415  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|+|.+|+|||||+..+..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998876

>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=86.88  E-value=0.18  Score=44.95  Aligned_cols=24  Identities=33%  Similarity=0.227  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-|.|.|.+|+||||+|.++.++
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CEEEEEEeCCCCCHHHHHHHHHHc
Confidence            367889999999999999988876

>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=86.87  E-value=0.16  Score=46.55  Aligned_cols=22  Identities=27%  Similarity=0.261  Sum_probs=19.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +.|+|.|.+|+|||||..++..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHc
Confidence            4689999999999999998876

>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=86.85  E-value=0.15  Score=44.97  Aligned_cols=21  Identities=19%  Similarity=0.344  Sum_probs=18.5

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |+|.|.+|+|||+|...+...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            568899999999999998763

>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=86.80  E-value=0.18  Score=47.40  Aligned_cols=23  Identities=26%  Similarity=0.421  Sum_probs=20.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+|+|+|..|+||||+|..+.++
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999988665

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=86.78  E-value=2.1  Score=40.57  Aligned_cols=25  Identities=20%  Similarity=0.270  Sum_probs=21.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ..-.++|+|++.+|||||+..+..+
T Consensus       111 ~~~~v~vvG~PNvGKSsliN~L~~~  135 (273)
T d1puja_         111 RAIRALIIGIPNVGKSTLINRLAKK  135 (273)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CceEEEEEecCccchhhhhhhhhcc
Confidence            3456899999999999999988763

>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=86.61  E-value=0.22  Score=43.75  Aligned_cols=26  Identities=27%  Similarity=0.294  Sum_probs=23.1

Q ss_pred             CceEEEEEccCCCchhHHHHHHHHHh
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      ..-+|.+.|.=|+||||+++.+++.+
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhc
Confidence            35689999999999999999999864

>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=86.57  E-value=0.14  Score=45.89  Aligned_cols=20  Identities=30%  Similarity=0.338  Sum_probs=17.5

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.+.|.+|+|||+|..++..
T Consensus         5 ivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhh
Confidence            67899999999999988754

>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=86.54  E-value=0.15  Score=45.19  Aligned_cols=22  Identities=36%  Similarity=0.231  Sum_probs=18.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .-|.|+|.+|+|||||..++..
T Consensus        16 ~kI~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          16 HKVIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            4567999999999999998765

>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=86.43  E-value=0.12  Score=48.93  Aligned_cols=24  Identities=33%  Similarity=0.499  Sum_probs=21.6

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.+..
T Consensus        30 ~Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          30 NGERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHc
Confidence            457999999999999999999876

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=86.34  E-value=0.26  Score=47.55  Aligned_cols=36  Identities=19%  Similarity=0.001  Sum_probs=25.6

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcccceEEEe
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFMA  240 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v~  240 (709)
                      .+-++|.|.+|+|||+|+.........+....++..
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~  102 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILNQQGQNVICVYVA  102 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEE
T ss_pred             CceEeeccCCCCChHHHHHHHHhhhcccCceeeeee
Confidence            345789999999999999987665444444444443

>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=86.28  E-value=0.17  Score=45.36  Aligned_cols=20  Identities=40%  Similarity=0.559  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |++.|.+|+|||||+..+.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67999999999999998876

>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=86.17  E-value=0.17  Score=45.46  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|.|.|.+|+|||+|...+.+.
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhhC
Confidence            3788999999999999998763

>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=86.13  E-value=0.19  Score=44.59  Aligned_cols=23  Identities=22%  Similarity=0.452  Sum_probs=20.9

Q ss_pred             ceEEEEEccCCCchhHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...|+|.|.+|+|||||..++..
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHT
T ss_pred             ccEEEEECCCCCCHHHHHHHHhC
Confidence            46789999999999999999986

>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=86.04  E-value=0.27  Score=46.90  Aligned_cols=39  Identities=15%  Similarity=0.269  Sum_probs=28.2

Q ss_pred             hhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHH
Q 005191          190 HVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       190 el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      .+.++...+.......-.|+|.|.+|+|||||...+..+
T Consensus        17 ~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          17 KLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHhhcCCCCcEEEEECCCCCcHHHHHHHHhCC
Confidence            344455555544444567889999999999999999864

>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=86.01  E-value=0.18  Score=45.79  Aligned_cols=21  Identities=19%  Similarity=0.308  Sum_probs=18.8

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |+|.|.+|+|||||...+...
T Consensus         9 ivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHhhC
Confidence            678999999999999998863

>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=85.99  E-value=0.16  Score=45.93  Aligned_cols=19  Identities=26%  Similarity=0.373  Sum_probs=17.1

Q ss_pred             EEEEEccCCCchhHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVV  225 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v  225 (709)
                      -|.|.|.+|+|||+|...+
T Consensus         4 KivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            3678999999999999988

>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=85.95  E-value=0.18  Score=45.12  Aligned_cols=21  Identities=24%  Similarity=0.291  Sum_probs=18.8

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.+.|.+|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678999999999999988874

>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=85.95  E-value=0.18  Score=44.16  Aligned_cols=20  Identities=30%  Similarity=0.416  Sum_probs=17.8

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |++.|.+|+|||||..++..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            56889999999999998866

>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=85.87  E-value=0.18  Score=44.80  Aligned_cols=20  Identities=35%  Similarity=0.586  Sum_probs=18.0

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.+.|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67899999999999998865

>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=85.79  E-value=0.22  Score=47.55  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=22.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhh
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQ  231 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~  231 (709)
                      .+..|+|.+|+||||||.+++..+..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHHHc
Confidence            57889999999999999999876543

>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=85.77  E-value=0.2  Score=44.65  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.2

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHH
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      ...|+|.|.+|+|||||...+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            457999999999999999998863

>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=85.65  E-value=0.19  Score=44.51  Aligned_cols=20  Identities=30%  Similarity=0.562  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.|+|.+|+|||||+..+.+
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHh
Confidence            77999999999999988876

>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=85.55  E-value=0.2  Score=44.26  Aligned_cols=21  Identities=29%  Similarity=0.444  Sum_probs=18.8

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|.|.|.+|+|||+|...+..
T Consensus         6 KivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           6 KVIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            477999999999999999875

>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=85.51  E-value=0.15  Score=45.58  Aligned_cols=20  Identities=25%  Similarity=0.489  Sum_probs=18.3

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |+|.|.+|+|||||...+..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHhC
Confidence            88999999999999999864

>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=85.50  E-value=0.19  Score=44.80  Aligned_cols=21  Identities=19%  Similarity=0.213  Sum_probs=19.2

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .|+|+|.+|+|||||...+..
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            589999999999999999875

>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=85.39  E-value=0.18  Score=47.58  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=21.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.++.
T Consensus        27 ~Gei~glvG~nGaGKSTLl~~l~G   50 (238)
T d1vpla_          27 EGEIFGLIGPNGAGKTTTLRIIST   50 (238)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhc
Confidence            457999999999999999999865

>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=85.27  E-value=0.17  Score=47.83  Aligned_cols=24  Identities=29%  Similarity=0.429  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.+.-
T Consensus        31 ~Gei~~liGpnGaGKSTl~~~i~G   54 (240)
T d1ji0a_          31 RGQIVTLIGANGAGKTTTLSAIAG   54 (240)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            457999999999999999999865

>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=85.27  E-value=0.26  Score=43.87  Aligned_cols=22  Identities=36%  Similarity=0.318  Sum_probs=18.2

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|.+.|.+|+|||||...+..
T Consensus        18 ~KI~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          18 LRILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEEEETTSSHHHHHHHTCC
T ss_pred             EEEEEECCCCCCHHHHHHHHhc
Confidence            3456999999999999988754

>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=85.20  E-value=0.2  Score=45.17  Aligned_cols=21  Identities=24%  Similarity=0.268  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |++.|.+|+|||+|...+...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            678899999999999988763

>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=85.08  E-value=0.21  Score=44.07  Aligned_cols=21  Identities=29%  Similarity=0.596  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.+.|.+|+|||+|...+.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCcCHHHHHHHHHhC
Confidence            567899999999999998873

>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=85.08  E-value=0.21  Score=44.40  Aligned_cols=20  Identities=25%  Similarity=0.396  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.+.|.+|+|||+|...+..
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            77999999999999998876

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=84.87  E-value=0.21  Score=44.84  Aligned_cols=21  Identities=24%  Similarity=0.234  Sum_probs=18.4

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |.|.|.+|+|||+|..++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            678999999999999988654

>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=84.86  E-value=0.21  Score=43.37  Aligned_cols=21  Identities=24%  Similarity=0.257  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|+|+|.+|+|||||..++..
T Consensus         3 kI~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            367999999999999999875

>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=84.80  E-value=0.29  Score=44.57  Aligned_cols=40  Identities=18%  Similarity=0.294  Sum_probs=31.8

Q ss_pred             hhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          189 SHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       189 ~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .-+..+..+|. +.+....+.++|+++.|||.+|..+.+-+
T Consensus        38 ~Fl~~l~~~l~-~~PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          38 TFLGALKSFLK-GTPKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             HHHHHHHHHHH-TCTTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHc-CCCCceEEEEECCCCccHHHHHHHHHHHh
Confidence            34566667774 45677999999999999999999888764

>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=84.79  E-value=0.19  Score=48.05  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=21.4

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||++.+.-
T Consensus        29 ~Gei~~liG~nGaGKSTLl~~i~G   52 (254)
T d1g6ha_          29 KGDVTLIIGPNGSGKSTLINVITG   52 (254)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHC
Confidence            356999999999999999999865

>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=84.63  E-value=0.16  Score=45.47  Aligned_cols=21  Identities=38%  Similarity=0.588  Sum_probs=18.6

Q ss_pred             EEEEEccCCCchhHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      -|+|.|.+|+|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             eEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999998754

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=84.33  E-value=0.58  Score=45.14  Aligned_cols=25  Identities=28%  Similarity=0.029  Sum_probs=21.0

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHh
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      .+.++|.|.+|+|||+|+..+....
T Consensus        68 GQr~~If~~~g~GKt~ll~~~~~~~   92 (285)
T d2jdia3          68 GQRELIIGDRQTGKTSIAIDTIINQ   92 (285)
T ss_dssp             TCBCEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhH
Confidence            4577899999999999998887653

>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=84.09  E-value=0.19  Score=47.95  Aligned_cols=24  Identities=29%  Similarity=0.412  Sum_probs=20.8

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ....++|+|+.|.|||||++.+..
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHh
Confidence            456899999999999999998754

>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=84.06  E-value=0.4  Score=48.13  Aligned_cols=38  Identities=24%  Similarity=0.203  Sum_probs=26.9

Q ss_pred             chhhhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHhh
Q 005191          188 ESHVEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQFS  230 (709)
Q Consensus       188 ~~el~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~~  230 (709)
                      +.....+...+.     .++..|+|++|.||||++..+...+.
T Consensus       151 ~~Q~~A~~~al~-----~~~~vI~G~pGTGKTt~i~~~l~~l~  188 (359)
T d1w36d1         151 NWQKVAAAVALT-----RRISVISGGPGTGKTTTVAKLLAALI  188 (359)
T ss_dssp             CHHHHHHHHHHT-----BSEEEEECCTTSTHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHc-----CCeEEEEcCCCCCceehHHHHHHHHH
Confidence            344555555553     36899999999999999877665443

>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=83.99  E-value=0.25  Score=44.00  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=19.1

Q ss_pred             EEEEEccCCCchhHHHHHHHHH
Q 005191          207 LVGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       207 vv~I~G~gGiGKTtLA~~v~~~  228 (709)
                      -|++.|.+|+|||+|...+...
T Consensus         7 ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           7 RLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhC
Confidence            4678999999999999988773

>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=83.82  E-value=0.14  Score=45.48  Aligned_cols=20  Identities=35%  Similarity=0.471  Sum_probs=17.0

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.|.|.+|+|||+|..++.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999987765

>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=83.67  E-value=0.2  Score=47.11  Aligned_cols=24  Identities=21%  Similarity=0.338  Sum_probs=21.3

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      ...+++|.|+.|.|||||.+.+..
T Consensus        24 ~Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          24 AGEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TTCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhC
Confidence            357999999999999999998875

>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=83.08  E-value=0.21  Score=44.20  Aligned_cols=23  Identities=30%  Similarity=0.380  Sum_probs=19.2

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +.+ |.|.|.+|+|||||...+.+
T Consensus        12 ~~k-IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          12 EMR-ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             CEE-EEEEEETTSSHHHHHHHTTC
T ss_pred             eEE-EEEECCCCCCHHHHHHHHhc
Confidence            455 66889999999999998865

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=82.85  E-value=0.4  Score=47.51  Aligned_cols=29  Identities=28%  Similarity=0.249  Sum_probs=24.5

Q ss_pred             ceEEEEEccCCCchhHHHHHHHHHhhhcc
Q 005191          205 VRLVGIWGMGGIGKTTIAGVVFNQFSQKF  233 (709)
Q Consensus       205 ~~vv~I~G~gGiGKTtLA~~v~~~~~~~f  233 (709)
                      +..|.|-|+-|+||||+++.+.+.+..+.
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~   34 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGS   34 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSS
T ss_pred             eEEEEEECCccCCHHHHHHHHHHHhccCC
Confidence            45688899999999999999999876554

>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=82.55  E-value=0.23  Score=44.00  Aligned_cols=24  Identities=21%  Similarity=0.173  Sum_probs=20.5

Q ss_pred             CceEEEEEccCCCchhHHHHHHHH
Q 005191          204 DVRLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       204 ~~~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +...|+|.|.+++|||||..++..
T Consensus        15 ~~~~I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          15 TGIEVAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             CSEEEEEEECTTSSHHHHHTTTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhC
Confidence            467799999999999999987743

>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=82.27  E-value=0.17  Score=43.93  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=19.1

Q ss_pred             EEEEccCCCchhHHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFNQ  228 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~~  228 (709)
                      |+|.|.+|+|||||...+..+
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHhCC
Confidence            789999999999999998764

>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=82.22  E-value=0.53  Score=45.06  Aligned_cols=39  Identities=15%  Similarity=0.169  Sum_probs=31.3

Q ss_pred             hhHHHhhhhccCCCceEEEEEccCCCchhHHHHHHHHHh
Q 005191          191 VEQVRSLLAIGLPDVRLVGIWGMGGIGKTTIAGVVFNQF  229 (709)
Q Consensus       191 l~~L~~~L~~~~~~~~vv~I~G~gGiGKTtLA~~v~~~~  229 (709)
                      +..+..+|....+....+.++|+|+.|||+++..+.+-+
T Consensus        90 ~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~l  128 (267)
T d1u0ja_          90 ASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHTV  128 (267)
T ss_dssp             HHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCCCccEEEEEEcCCCCCHHHHHHHHHHHh
Confidence            345666776555678899999999999999999888764

>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=82.16  E-value=0.31  Score=43.40  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.3

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      --|+|.|.+|+|||||..++..
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
Confidence            3478999999999999999875

>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=82.11  E-value=0.29  Score=45.41  Aligned_cols=22  Identities=27%  Similarity=0.285  Sum_probs=18.7

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      .-|.|.|.+|+|||||..++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhc
Confidence            3578999999999999988754

>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=82.06  E-value=0.2  Score=44.36  Aligned_cols=20  Identities=25%  Similarity=0.282  Sum_probs=8.2

Q ss_pred             EEEEccCCCchhHHHHHHHH
Q 005191          208 VGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       208 v~I~G~gGiGKTtLA~~v~~  227 (709)
                      |.|.|.+|+|||||...+..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCcCHHHHHHHHHh
Confidence            67889999999999988775

>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=81.52  E-value=0.19  Score=47.14  Aligned_cols=22  Identities=18%  Similarity=0.388  Sum_probs=17.9

Q ss_pred             eEEEEEccCCCchhHHHHHHHH
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFN  227 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~  227 (709)
                      +...+.|.+|+|||||...+.-
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~  119 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISP  119 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCccHHHHHHhhcc
Confidence            3456889999999999987754

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=80.95  E-value=0.55  Score=46.42  Aligned_cols=34  Identities=26%  Similarity=0.274  Sum_probs=26.1

Q ss_pred             eEEEEEccCCCchhHHHHHHHHHhhhcccceEEE
Q 005191          206 RLVGIWGMGGIGKTTIAGVVFNQFSQKFEGKYFM  239 (709)
Q Consensus       206 ~vv~I~G~gGiGKTtLA~~v~~~~~~~f~~~~~v  239 (709)
                      -.|.|-|.-|+||||+++.+.+.+..+-....++
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~   39 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHHFAITPNRILLI   39 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHTTTTSGGGEEEE
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHHhhcCCceEEE
Confidence            3588999999999999999998776553344444