Citrus Sinensis ID: 000869

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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-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------1210------1220------1230------1240------125
Protein Sequence
MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCWDGDLNTTIRQLHRVKLLERSSSYSNTYYSNRPFGTWRSCELEE
Secondary Structure (PSIPRED)
cccccHHHHHHHHHHHccccccccEEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccEEEEEEccHHHHHHcccccEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHcccccccccccccccHHHHHHccccccccHHHHHHHHHccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHccccEEcccccEEEEcHHHHHHHHHHHcccccEEEEEccccccccccccEEEEEEEEEccccccccccccccccEEEEEccccccccccccccccccccccccEEEEcccccccccccccccccccEEEcccccccccccccccccccEEcccccccccccHHccccccccEEEccccccccccccccccccccccEEcccccEEccccccccHHHcccccccccccccccEEEEEEEcccccccHHHHHccccccEEccccccccccccccccccccccccccccccccccEEEEEccccccccccccccccccEEEcccccccccccccccccccccccEEEEEcccccEEEEccccccccccccccccEEEEEccccccccccccccccccccccEEEEccccccccccccccccccccccEEEEEccccccEEEEcccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEcccccccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccEEccccccccccccccccccccEEEEccccccccccccccccccccccEEEEEcccccccccccccccccccccccccccccccccccccccccccEEccccccccccccccccccccccccEEEEEccccccccccHHHHcccccccEEEEccccccccccccccccccccccccccEEEEccccccccccccccccccccccccEEEEEccccccccccccccccccccEEEEccccccccccccccccccccccEEEEEEcccccEEEccccccccccccccccccEEEEccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccccccccHHEEEEHcccccHHHHHHHHHHHcccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHcccccccccEEEHHHHHHHHHHHHHccccEEEEEccccccccccccHcEEEEEEEcccccHccccccccccccEEEEEccccccccccccHHHHHHccccEEEEEcccccccccccccccccccEEEEcccccccccccccccccEEEEEccccccccccHHcccccccEEEEccccccccccccHHcccHcccEEEEEcccccccccccccHHHHHHHHHHcccHHHcccccHcccccHHcHHcHHHHHHHccccccccccccccccccccccccccccHHcccccccEEEEEEccccccccccccccccccEEEEccccccEEccccccccccccccEEEEcccccHHHccccccccccccccccccEEEEcccccHHccccccccccccccccEEEEccccccccccccccccccccccEEEEcccccHcEccccccccccccccccccccccEEEEcccHHHHccccccccccccccccEEEEcccccccccccccccccccccccccccEEEEcccccHcccccccccccccccccccEEEEccccccccccccHHccccccccEEEEccccccEEcccccccccccccccccccccEEEEcccHHHHHccccccccccccccEEEEccccccccccccccccccccEEEEccccccccccccccccccccEEEEccccccccccccccccccccccEEEEEcccccccccccHHHcccccccEEEEcccccccEccccccccccccccccccEEEEcccccHHHccccccccccccccccEEEEcccccccccccccccccccccEEEEcccccHccccccccccccccccEEEEccccccEEccccccccccccccccccccEEEEccccccccccccccccccccccEEEEcccccccEccccccccccccEEEEEccccccccccccccHHHccEcEEEEEcccccccEEcccccEEEEcccccc
Coil and Loop (DISEMBL)
MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNIWkrvdletvgipfgddhrGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLmagddvenreLKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQqlrmpslvnfggvpaEAYLTIELSYNYLEGEKLKNIFLLCSLmgneiatsDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLllggdnneklsMHDVVRAVAISIACRDQNALVVRNeevwewpdedalRKCYAISIRDSSIHELLeglecpqleflymdsngssveinvpekfftgMKKLKVVDFCRmqffslppsidHLLNLQTLCLDQCILGDVAIIGKlknleilsfsgsgivklpeelgqltklrhldlsncfklkviapnVISSLIRLEELYMSNcfvewedegpnsetINSRLDelmhlprlttlevhvkndnilpegfFARKLERFKIsvgeaaflpfgatsndacfrlswplfmindsETLRTLKLKLNSTtisskklegiknVEYLCLDKLQGIKNVLFELDTEGFSQLKHlhvqnnpdfmcivdsmervplhdafplleslnlynLMKLERICQDrlsvqsfnelKTIRVEHCGQLSNIFLLSAakclprletiAVINCRNIQEIfavgggdvvidhqkiefGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKdkldtsspllnekvvfpslealdLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIIskggtddqvtpnfvfpglttlrliglpklkslypgmhtsewpalkVLNVLACDQVTVFASELFHFCKiseenkldtparQSLFFLEKVFPnleelglngkdirmiwhgnfpqhlfgSLKVLRLADdhvsaagfplgllERFNNLEklrldgcsckeilsndghldkhggklAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLillpsssvsfwnltslevSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKlkrlslvdldslasfcsgnyifkfpsleylfvvgcpkmnifttgelstpprvdvmyrdtgppcwdgdlnttIRQLHRVKLlersssysntyysnrpfgtwrscelee
Flexible Loop (DISEMBL)
mggigkttlvkevarkarkdklfdrvvfsevsqtidiKKIQQAIAEKLGLvlqeetessrasrlheqlkrEEKILIILDNIWKRVDLETVgipfgddhrGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEvakackglpIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNeevwewpdedALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKlnsttisskklegiknVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKnrqaqglqetcYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKggtddqvtpNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSndghldkhggKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIfttgelstpprvDVMYRDTGPPCWDGDLNTTIRQLHRvkllersssysntyysnrpfgtwrscelee
Low Complexity Region (SEG)
MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDsllillpsssvsFWNLTSLEVSSCKKLINlvassaakslvalvkMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCWDGDLNTTIRQLHRVKLLERsssysntyysnRPFGTWRSCELEE
Disordered region (IsUnstruct)
****************ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL*******************EKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDE******INSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCWDGDLNTTIRQLHRVKLLERSSSYSNTYYSNRPFGTWR******
Disordered Region (DISOPRED)
MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL***********SRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPS**N**GVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAV*********QKIEFGQLRTLCLGNLPVLRSFCREVEK**QA*GLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISK**********FVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVV**********EIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNI*************VMYRDTGPPCWDGDLNTTIRQLHRVKLLERSSSYSNTYYSNRPFGTWRSCEL**
Disordered Region (DISEMBL)
MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ************EQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCWDGDLNTTIRQLHRVKLLERSSSYSNTYYSNRPFGTWRSCELEE
Disordered Region (DISPRO)
**GIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCWDGDLNTTIRQLHRVKLLERSSSYSNTYYSNRPFGTWRSCEL**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCWDGDLNTTIRQLHRVKLLERSSSYSNTYYSNRPFGTWRSCELEE
Positional Conservation
no confident homologs detected

---

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	1247	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.564	0.714	0.290	2e-67
O81825	919	Probable disease resistan	no	no	0.563	0.764	0.283	3e-59
Q42484	909	Disease resistance protei	no	no	0.514	0.705	0.281	5e-54
Q940K0	889	Probable disease resistan	no	no	0.340	0.478	0.325	8e-48
Q8L3R3	885	Disease resistance protei	no	no	0.344	0.484	0.303	3e-47
O64973	889	Disease resistance protei	no	no	0.505	0.708	0.278	6e-47
O64789	925	Probable disease resistan	no	no	0.344	0.463	0.316	1e-45
O64790	762	Probable disease resistan	no	no	0.514	0.841	0.287	5e-45
O22727	967	Probable disease resistan	no	no	0.335	0.432	0.324	7e-45
Q9FLB4	874	Putative disease resistan	no	no	0.495	0.707	0.278	3e-44

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  258 bits (660), Expect = 2e-67,   Method: Compositional matrix adjust.
 Identities = 225/775 (29%), Positives = 390/775 (50%), Gaps = 71/775 (9%)

Query: 1   MGGIGKTTLVKEVARKARKD---KLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ-EET 56
           MGG+GKTTLV+ +  K R++   + F  V+F  VS+  D +++Q+ IAE+L +  Q EE+
Sbjct: 172 MGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEES 231

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           E   A R++  L +E K L+ILD++WK +DL+ +GIP  ++++G K++LT+R   V  SM
Sbjct: 232 EEKLARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRSM 291

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRN 176
            ++ +  VD L EE+AW LF   AGD V +  ++  A  V++ C GLP+A+ T+  A+R 
Sbjct: 292 KTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRG 351

Query: 177 -KSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE-- 233
            K++  W   L +L   S+     +  + +  ++LSY++LE +K K  FLLC+L   +  
Sbjct: 352 KKNVKLWNHVLSKLS-KSVPWIKSIEEKIFQPLKLSYDFLE-DKAKFCFLLCALFPEDYS 409

Query: 234 IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAV 293
           I  +++ +Y M  G  + + + E++       +  L+D  LL  GD  + + MHDVVR  
Sbjct: 410 IEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDF 469

Query: 294 AISIACR---DQNALVVRN---EEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLE 347
           AI I      D ++LV+     +++ +     +LR+   ++ +  S+ +L+E   C +  
Sbjct: 470 AIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEF-CVKTS 528

Query: 348 FLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCI- 405
            L +  N    E  VP  F      L++++    +  S P  S+  L +L +L L  C  
Sbjct: 529 VLLLQGNFLLKE--VPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFK 586

Query: 406 LGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIR 465
           L  +  +  L  LE+L   G+ I++ P  L +L + RHLDLS    L+ I   V+S L  
Sbjct: 587 LVKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSS 646

Query: 466 LEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNIL--PEGFFARKL 523
           LE L M++    W  +G  ++   + ++E+  L RL  L + + +   L      + ++L
Sbjct: 647 LETLDMTSSHYRWSVQG-ETQKGQATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRL 705

Query: 524 ERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLK-LNSTTISSKKLEGI 582
           ++F++ VG    L    T +D                  R L +  LN + +S   L  +
Sbjct: 706 KKFQLVVGSRYIL---RTRHDK-----------------RRLTISHLNVSQVSIGWL--L 743

Query: 583 KNVEYLCLDKLQGIKNVLFEL--DTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPL 640
                L L+  QGI+ ++ +L  D +GF  LK L ++N      I+++   V +      
Sbjct: 744 AYTTSLALNHCQGIEAMMKKLVSDNKGFKNLKSLTIEN-----VIINTNSWVEMVSTNTS 798

Query: 641 LESLNLYNLM-KLERICQDRLSVQSFNELKT-----------IRVEHCGQLSNIFLLSAA 688
            +S ++ +L+  LE +   R+ +++F+EL+T           I +  C +L  +      
Sbjct: 799 KQSSDILDLLPNLEELHLRRVDLETFSELQTHLGLKLETLKIIEITMCRKLRTLLDKRNF 858

Query: 689 KCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFC 743
             +P LE I +  C ++Q +      + ++ HQ      LR L L NLP L S C
Sbjct: 859 LTIPNLEEIEISYCDSLQNLH-----EALLYHQPF-VPNLRVLKLRNLPNLVSIC 907

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score =  231 bits (589), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 220/775 (28%), Positives = 366/775 (47%), Gaps = 72/775 (9%)

Query: 1   MGGIGKTTLVKEVAR---KARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETE 57
           MGG+GKTTLV+ +     K    + F  V++  VS+  D+K++Q  IA++LG     E  
Sbjct: 142 MGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQM 201

Query: 58  SSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFG-DDHRGCKLLLTARDRTVLFSM 116
           +     + E+L   +  L+ILD++W  +DL+ +GIP   +  +  K++LT+R   V   M
Sbjct: 202 NQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTSRRLEVCQQM 261

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRN 176
            + +N  V  L+E+EAW LF    G+   +  +K  A +V+  C GLP+A+ TI R LR 
Sbjct: 262 MTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRG 321

Query: 177 KSMPQ---WKTTLQQLR--MPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMG 231
           K  PQ   WK TL  L+   PS+        + + T++LSY++L+ + +K+ FL C+L  
Sbjct: 322 K--PQVEVWKHTLNLLKRSAPSI----DTEEKIFGTLKLSYDFLQ-DNMKSCFLFCALFP 374

Query: 232 NE--IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDV 289
            +  I  S+L  Y +  G+  G    E+       L+ +L+D  LL  GD+ + + MHDV
Sbjct: 375 EDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDGDSCDTVKMHDV 434

Query: 290 VRAVAI---SIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHEL----LEGLE 342
           VR  AI   S      ++LV+    + E+P +  +     +S+  + +  L    +EG+E
Sbjct: 435 VRDFAIWFMSSQGEGFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNVIEGVE 494

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD 402
                 L +   G+S    VP  F      L+++D   ++  +LP S  +L +L++L L 
Sbjct: 495 T-----LVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLR 549

Query: 403 QC-ILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
            C  L ++  +  L  L+ L    S I +LP  L  L+ LR++ +SN ++L+ I    I 
Sbjct: 550 NCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTIL 609

Query: 462 SLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF--F 519
            L  LE L M+     W  +G   E   + LDE+  LP L  L + + +       F   
Sbjct: 610 QLSSLEVLDMAGSAYSWGIKGEEREG-QATLDEVTCLPHLQFLAIKLLDVLSFSYEFDSL 668

Query: 520 ARKLERFKISVGEAAFLPFGATS----NDACFRLSWPLFMINDSETLRTLKLKLNSTTIS 575
            ++L +F+       F P  + S     + C  +S                  +N +  S
Sbjct: 669 TKRLTKFQF-----LFSPIRSVSPPGTGEGCLAIS-----------------DVNVSNAS 706

Query: 576 SKKLEGIKNVEYLCLDKLQGIKNVLFELDTE---GFSQLKHLHVQNNPDFMCIVDSMERV 632
              L  +++V  L L+  +G+  +   L T+    F  +K L +   P          ++
Sbjct: 707 IGWL--LQHVTSLDLNYCEGLNGMFENLVTKSKSSFVAMKALSIHYFPSLSLASGCESQL 764

Query: 633 PLHDAFPLLESLNLYNLMKLERICQ-DRLSVQSFNELKTIRVEHCGQLSNIFLLSA-AKC 690
              D FP LE L+L N + LE I + +        +LK ++V  C QL  +F     A  
Sbjct: 765 ---DLFPNLEELSLDN-VNLESIGELNGFLGMRLQKLKLLQVSGCRQLKRLFSDQILAGT 820

Query: 691 LPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCRE 745
           LP L+ I V++C  ++E+F      V    + +   +L  + L  LP LRS C +
Sbjct: 821 LPNLQEIKVVSCLRLEELFNFSSVPVDFCAESL-LPKLTVIKLKYLPQLRSLCND 874

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q42484|RPS2_ARATH Disease resistance protein RPS2 OS=Arabidopsis thaliana GN=RPS2 PE=1 SV=1

 Score =  214 bits (544), Expect = 5e-54,   Method: Compositional matrix adjust.
 Identities = 214/760 (28%), Positives = 341/760 (44%), Gaps = 119/760 (15%)

Query: 2   GGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE-ETESS 59
           GG+GKTTL++ +  +   K   +D +++ ++S+      IQQA+  +LGL   E ET  +
Sbjct: 184 GGVGKTTLMQSINNELITKGHQYDVLIWVQMSREFGECTIQQAVGARLGLSWDEKETGEN 243

Query: 60  RASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSE 119
           RA +++  L R+++ L++LD++W+ +DLE  G+P  D    CK++ T R   +  +MG+E
Sbjct: 244 RALKIYRAL-RQKRFLLLLDDVWEEIDLEKTGVPRPDRENKCKVMFTTRSIALCNNMGAE 302

Query: 120 KNFLVDILKEEEAWRLF--KLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNK 177
               V+ L+++ AW LF  K+   D +E+  ++  A  +   C GLP+AL T+  A+ ++
Sbjct: 303 YKLRVEFLEKKHAWELFCSKVWRKDLLESSSIRRLAEIIVSKCGGLPLALITLGGAMAHR 362

Query: 178 -SMPQWKTTLQQL-RMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE-- 233
            +  +W    + L R P+     G+    +  ++ SY+ LE + L++ FL C+L   E  
Sbjct: 363 ETEEEWIHASEVLTRFPA--EMKGMNY-VFALLKFSYDNLESDLLRSCFLYCALFPEEHS 419

Query: 234 IATSDLFKYCMCLGIF---KGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVV 290
           I    L +Y +  G      GV+T+       Y LI  L+   LL  GD   ++ MH+VV
Sbjct: 420 IEIEQLVEYWVGEGFLTSSHGVNTIYKG----YFLIGDLKAACLLETGDEKTQVKMHNVV 475

Query: 291 RAVAISIACRDQN----ALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL 346
           R+ A+ +A          LV  +    E P  +  R+   IS+ D+ I  L E L CP+L
Sbjct: 476 RSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQALVISLLDNRIQTLPEKLICPKL 535

Query: 347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCIL 406
             L +  N S  +I  P  FF  M  L+V+D        +P SI +L+ L          
Sbjct: 536 TTLMLQQNSSLKKI--PTGFFMHMPVLRVLDLSFTSITEIPLSIKYLVELYH-------- 585

Query: 407 GDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRL 466
                         LS SG+ I  LP+ELG L KL+HLDL     L+ I  + I  L +L
Sbjct: 586 --------------LSMSGTKISVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKL 631

Query: 467 EELYMSNCFVEWEDEG-PNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLER 525
           E L +   +  WE +     E       +L +L  LTTL + V +   L   F    L +
Sbjct: 632 EVLNLYYSYAGWELQSFGEDEAEELGFADLEYLENLTTLGITVLSLETLKTLFEFGALHK 691

Query: 526 F--KISVGEA-AFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI 582
               + V E    L F   S            + N    LR L +K              
Sbjct: 692 HIQHLHVEECNELLYFNLPS------------LTNHGRNLRRLSIK------------SC 727

Query: 583 KNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLE 642
            ++EYL       +    FE D                     + S+E + LH       
Sbjct: 728 HDLEYL-------VTPADFEND--------------------WLPSLEVLTLH------- 753

Query: 643 SLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINC 702
             +L+NL    R+  + +S      ++ I + HC +L N+   S  + LP+LE I + +C
Sbjct: 754 --SLHNLT---RVWGNSVSQDCLRNIRCINISHCNKLKNV---SWVQKLPKLEVIELFDC 805

Query: 703 RNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSF 742
           R I+E+ +      V D     F  L+TL   +LP L S 
Sbjct: 806 REIEELISEHESPSVED--PTLFPSLKTLRTRDLPELNSI 843

Disease resistance (R) protein that specifically recognizes the AvrRpt2 type III effector avirulence protein from Pseudomonas syringae. 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. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is degraded by AvrRpt2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  193 bits (490), Expect = 8e-48,   Method: Compositional matrix adjust.
 Identities = 154/473 (32%), Positives = 237/473 (50%), Gaps = 48/473 (10%)

Query: 1   MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
           MGG+GKTTL K++  K A     FD V++  VS+ + I K+Q+ IAEKL L   + + + 
Sbjct: 180 MGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKN 239

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           ES +A+ +H  LK + + +++LD+IW++VDLE +GIP+  +   CK+  T R R V   M
Sbjct: 240 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEM 298

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
           G  K   V+ L+ E+AW LFK   GD+  + +  +   A EVA+ C+GLP+AL  I   +
Sbjct: 299 GDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETM 358

Query: 175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
            +K+M Q W+  +      S   F  +  +    ++ SY+ L  E +K+ FL C+L    
Sbjct: 359 SSKTMVQEWEHAIHVFNT-SAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPED 417

Query: 232 NEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVR 291
            EI    L  Y +C G       ++ AR   YA++  L    LL          MHDVVR
Sbjct: 418 GEIYNEKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKV-GTYYCVMHDVVR 476

Query: 292 AVAISIAC----RDQNALVVRNEEVWEWP---DEDALRKCYAISIRDSSIHELLEGLECP 344
            +A+ IA     + +N +V     + E P   D  A+RK   +S+ D+ I E+    +C 
Sbjct: 477 EMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRK---MSLMDNDIEEITCESKCS 533

Query: 345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-LPPSIDHLLNLQTLCLDQ 403
           +L  L++ SN      N+P  F   M+KL V+D    + F+ LP  I  L++LQ      
Sbjct: 534 ELTTLFLQSNKLK---NLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQ------ 584

Query: 404 CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
                            L  S + I  +P  L +L KL  LDL+   +L  I+
Sbjct: 585 ----------------FLDLSNTSIEHMPIGLKELKKLTFLDLTYTDRLCSIS 621

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8L3R3|RFL1_ARATH Disease resistance protein RFL1 OS=Arabidopsis thaliana GN=RFL1 PE=3 SV=2

 Score =  191 bits (485), Expect = 3e-47,   Method: Compositional matrix adjust.
 Identities = 143/471 (30%), Positives = 235/471 (49%), Gaps = 42/471 (8%)

Query: 1   MGGIGKTTLVKEVARKARK-DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV---LQEET 56
           MGG+GKTTL+ ++  K  K    FD V++  VS+   + KIQ++I EKLGLV     E+ 
Sbjct: 184 MGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKN 243

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           ++ RA  +H  L+R+ K +++LD+IW++V+L+ +G+P+     GCK+  T   + V   M
Sbjct: 244 KNQRALDIHNVLRRK-KFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRM 302

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTATEVAKACKGLPIALTTIARAL 174
           G +    +  L    AW L K   G++    + ++   A +V++ C GLP+AL  I   +
Sbjct: 303 GVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETM 362

Query: 175 R-NKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGN- 232
              +++ +W+   + L   S  +F G+  E    ++ SY+ L GE  K+ FL CSL    
Sbjct: 363 SFKRTIQEWRHATEVL--TSATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPED 420

Query: 233 -EIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQL-RDCFLLLGGDNNEKLSMHDVV 290
            EI    L +Y +C G  K     E A    Y ++  L R   LL G  + + +SMHD+V
Sbjct: 421 FEIRKEMLIEYWICEGFIKEKQGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMV 480

Query: 291 RAVAISI----ACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL 346
           R +A+ I        +  +V     + E P+ +  R    +S+ +++  ++L   EC +L
Sbjct: 481 REMALWIFSDLGKHKERCIVQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVEL 540

Query: 347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-LPPSIDHLLNLQTLCLDQCI 405
             L++ +N   V+I++  +FF  M  L V+D       S LP  I  L++LQ        
Sbjct: 541 ITLFLQNNYKLVDISM--EFFRCMPSLAVLDLSENHSLSELPEEISELVSLQ-------- 590

Query: 406 LGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
                          L  SG+ I +LP  L +L KL HL L    +L+ I+
Sbjct: 591 --------------YLDLSGTYIERLPHGLHELRKLVHLKLERTRRLESIS 627

Disease resistance (R) protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  190 bits (483), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 201/722 (27%), Positives = 330/722 (45%), Gaps = 92/722 (12%)

Query: 1   MGGIGKTTLVKEVARKARK-DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESS 59
           MGG+GKTTL+ ++  K  K D  FD V++  VS++  ++KIQ+ IAEK+GL   E +E +
Sbjct: 184 MGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKN 243

Query: 60  R---ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
               A  +H  L+R  K +++LD+IW++V+L+ VG+P+     GCK+  T R R V   M
Sbjct: 244 DNQIAVDIHNVLRRR-KFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRM 302

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTATEVAKACKGLPIALTTIARAL 174
           G +    V  L+ EE+W LF++  G +    + ++   A +VA+ C+GLP+AL  I  A+
Sbjct: 303 GVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAM 362

Query: 175 R-NKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE 233
              +++ +W   +  L   S ++F G+  E    ++ SY+ L GE +K+ FL CSL   +
Sbjct: 363 ACKRTVHEWCHAIDVL-TSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPED 421

Query: 234 --IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQL-RDCFLLLGGDNNEKLSMHDVV 290
             I    L  Y +  G     +  E      Y +I  L R C LL    N   + MHDVV
Sbjct: 422 YLIDKEGLVDYWISEGFINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVV 481

Query: 291 RAVAISIAC---RDQNALVVRN----EEVWEWPDEDALRKCYAISIRDSSIHELLEGLEC 343
           R +A+ I+    + +   +VR      EV +  D + +RK   IS+ ++ I E+ +  EC
Sbjct: 482 REMALWISSDLGKQKEKCIVRAGVGLREVPKVKDWNTVRK---ISLMNNEIEEIFDSHEC 538

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
             L  L++  N     + +  +FF  M  L V+D    Q  +  P               
Sbjct: 539 AALTTLFLQKNDV---VKISAEFFRCMPHLVVLDLSENQSLNELPE-------------- 581

Query: 404 CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL 463
                   I +L +L   + S + I +LP  L  L KL HL+L +   L  I    IS+L
Sbjct: 582 -------EISELASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEHMSSLGSILG--ISNL 632

Query: 464 IRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKL 523
             L  L + +  +  +          S + EL  L  L  + + + +  +      +++L
Sbjct: 633 WNLRTLGLRDSRLLLD---------MSLVKELQLLEHLEVITLDISSSLVAEPLLCSQRL 683

Query: 524 ERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTL--------KLKLNSTTIS 575
                 V     + F     ++   L+ P         LR L        ++K+  TT S
Sbjct: 684 ------VECIKEVDFKYLKEESVRVLTLPTM-----GNLRKLGIKRCGMREIKIERTTSS 732

Query: 576 SKKLEG-----IKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSME 630
           S + +        N+  + + K  G+K++ + L     + L+    +   D +    S E
Sbjct: 733 SSRNKSPTTPCFSNLSRVFIAKCHGLKDLTWLLFAPNLTFLEVGFSKEVEDII----SEE 788

Query: 631 RVPLHDA----FPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLS 686
           +   H A    F  LE+L+L+ L  L+RI    L    F  LK I VE C +L  + L S
Sbjct: 789 KAEEHSATIVPFRKLETLHLFELRGLKRIYAKAL---HFPCLKVIHVEKCEKLRKLPLDS 845

Query: 687 AA 688
            +
Sbjct: 846 KS 847

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). 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. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|O64789|DRL18_ARATH Probable disease resistance protein At1g61310 OS=Arabidopsis thaliana GN=At1g61310 PE=2 SV=1

 Score =  186 bits (472), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 152/480 (31%), Positives = 238/480 (49%), Gaps = 51/480 (10%)

Query: 1   MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
           MGG+GKTTL K++  K A     FD V++  VSQ   + K+Q+ IAEKL L   + + + 
Sbjct: 182 MGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKN 241

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           ES +A+ +H  LK + + +++LD+IW++VDLE +GIP+  +   CK+  T R R V   M
Sbjct: 242 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEM 300

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
           G  K   V+ L+ E+AW LFK   GD+  + +  +   A EVA+ C+GLP+AL  I   +
Sbjct: 301 GDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVGLAREVAQKCRGLPLALNVIGETM 360

Query: 175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
            +K+M Q W+  +  L   S   F G+  +    ++ SY+ L  E +K+ FL C+L    
Sbjct: 361 ASKTMVQEWEYAIDVLTR-SAAEFSGMENKILPILKYSYDSLGDEHIKSCFLYCALFPED 419

Query: 232 NEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLL--LGGDNNEKLS---- 285
            +I T  L    +C G       ++ AR   YA++  L    LL  +G +    L+    
Sbjct: 420 GQIYTETLIDKLICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTELANLLTKVSI 479

Query: 286 ----MHDVVRAVAISIAC----RDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHEL 337
               MHDVVR +A+ IA     + +N +V  +  + E P+         +S+  + I E+
Sbjct: 480 YHCVMHDVVREMALWIASDFGKQKENFVVQASAGLHEIPEVKDWGAVRRMSLMRNEIEEI 539

Query: 338 LEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFC-RMQFFSLPPSIDHLLNL 396
               +C +L  L++ SN      N+  +F   M+KL V+D      F  LP  I  L++L
Sbjct: 540 TCESKCSELTTLFLQSNQLK---NLSGEFIRYMQKLVVLDLSDNRDFNELPEQISGLVSL 596

Query: 397 QTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
           Q                       L  S + I +LP  L +L KL  LDL+   +L  I+
Sbjct: 597 Q----------------------YLDLSFTRIEQLPVGLKELKKLTFLDLAYTARLCSIS 634

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64790|DRL17_ARATH Probable disease resistance protein At1g61300 OS=Arabidopsis thaliana GN=At1g61300 PE=2 SV=2

 Score =  184 bits (466), Expect = 5e-45,   Method: Compositional matrix adjust.
 Identities = 208/724 (28%), Positives = 331/724 (45%), Gaps = 83/724 (11%)

Query: 1   MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
           MGG+GKTTL K++  K A+    FD V++  VS+   + K+Q+ IAEKL L   + + + 
Sbjct: 69  MGGVGKTTLFKKIHNKFAKMSSRFDIVIWIVVSKGAKLSKLQEDIAEKLHLCDDLWKNKN 128

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           ES +A+ +H  LK + + +++LD+IW++VDLE +G+P+  +   CK+  T RD+ V   M
Sbjct: 129 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTRDQKVCGEM 187

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
           G  K   V  L+ E+AW LFK   GD+    +  +   A EVA+ C+GLP+AL+ I   +
Sbjct: 188 GDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETM 247

Query: 175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
            +K+M Q W+  +  L   S   F  +  +    ++ SY+ L  E +K+ FL C+L    
Sbjct: 248 ASKTMVQEWEHAIDVLTR-SAAEFSNMGNKILPILKYSYDSLGDEHIKSCFLYCALFPED 306

Query: 232 NEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVR 291
           +EI    L  Y +C G       ++ AR   Y ++  L    LL      E + MHDVVR
Sbjct: 307 DEIYNEKLIDYWICEGFIGEDQVIKRARNKGYEMLGTLTLANLLTKV-GTEHVVMHDVVR 365

Query: 292 AVAISIAC---RDQNALVVRN----EEVWEWPDEDALRKCYAISIRDSSIHELLEGLECP 344
            +A+ IA    + +   VVR      E  E  D  A+R+   +S+ D+ I E+    +C 
Sbjct: 366 EMALWIASDFGKQKENFVVRARVGLHERPEAKDWGAVRR---MSLMDNHIEEITCESKCS 422

Query: 345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-LPPSIDHLLNLQTLCLDQ 403
           +L  L++ SN      N+  +F   M+KL V+D    + F+ LP  I  L++        
Sbjct: 423 ELTTLFLQSNQLK---NLSGEFIRYMQKLVVLDLSYNRDFNKLPEQISGLVS-------- 471

Query: 404 CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL 463
                         L+ L  S + I +LP  L +L KL  L+L+   +L  I+       
Sbjct: 472 --------------LQFLDLSNTSIKQLPVGLKKLKKLTFLNLAYTVRLCSISG------ 511

Query: 464 IRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKL 523
                +            G       S L EL  L  L  L + +       E    ++L
Sbjct: 512 -----ISRLLSLRLLRLLGSKVHGDASVLKELQKLQNLQHLAITLS-----AELSLNQRL 561

Query: 524 ERFKISVGEAAFL--PFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTIS----SK 577
                 +G   FL  PF  +   +   LS  L++ N       +K + + T  S    + 
Sbjct: 562 ANLISILGIEGFLQKPFDLSFLASMENLS-SLWVKNS--YFSEIKCRESETASSYLRINP 618

Query: 578 KLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDA 637
           K+    N+  L L K   IK++ + L       L +L+++++ +   I++  +   L   
Sbjct: 619 KIPCFTNLSRLGLSKCHSIKDLTWILFA---PNLVYLYIEDSREVGEIINKEKATNLTSI 675

Query: 638 FPLL--ESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLE 695
            P L  E L LYNL KLE I    L    F  L  I V  C +L  + L   A  +P +E
Sbjct: 676 TPFLKLERLILYNLPKLESIYWSPL---HFPRLLIIHVLDCPKLRKLPL--NATSVPLVE 730

Query: 696 TIAV 699
              +
Sbjct: 731 EFQI 734

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O22727|DRL16_ARATH Probable disease resistance protein At1g61190 OS=Arabidopsis thaliana GN=At1g61190 PE=3 SV=1

 Score =  183 bits (465), Expect = 7e-45,   Method: Compositional matrix adjust.
 Identities = 152/469 (32%), Positives = 235/469 (50%), Gaps = 51/469 (10%)

Query: 1   MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
           MGG+GKTTL K++  K A     FD V++  VSQ   + K+Q+ IAEKL L   + + + 
Sbjct: 181 MGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKN 240

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           ES +A+ +H  LK + + +++LD+IW++VDLE +GIP+  +   CK+  T RD+ V   M
Sbjct: 241 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQM 299

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
           G  K   V  L+ E+AW LFK   GD+    +  +   A EVA+ C+GLP+AL+ I   +
Sbjct: 300 GDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETM 359

Query: 175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
            +K+M Q W+  +  L   S   F  +  +    ++ SY+ LE E +K+ FL C+L    
Sbjct: 360 ASKTMVQEWEHAIDVLTR-SAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPED 418

Query: 232 NEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLG--GDNNEKLSMHDV 289
           ++I T  L    +C G       ++ AR   Y ++  L    LL    G     + MHDV
Sbjct: 419 DKIDTKTLINKWICEGFIGEDQVIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHDV 478

Query: 290 VRAVAISIAC---RDQNALVVRN----EEVWEWPDEDALRKCYAISIRDSSIHELLEGLE 342
           VR +A+ IA    + +   VVR      E+ +  D  A+R+   +S+  + I E+    +
Sbjct: 479 VREMALWIASDFGKQKENYVVRARVGLHEIPKVKDWGAVRR---MSLMMNEIEEITCESK 535

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCR-MQFFSLPPSIDHLLNLQTLCL 401
           C +L  L++ SN      N+  +F   M+KL V+D      F  LP  I  L++LQ    
Sbjct: 536 CSELTTLFLQSNQLK---NLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQ---- 588

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCF 450
                              L  S + I +LP  L +L KL  L+L  CF
Sbjct: 589 ------------------YLDLSWTRIEQLPVGLKELKKLIFLNL--CF 617

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score =  181 bits (460), Expect = 3e-44,   Method: Compositional matrix adjust.
 Identities = 203/730 (27%), Positives = 337/730 (46%), Gaps = 112/730 (15%)

Query: 1   MGGIGKTTLVKEVARKARK-DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV---LQEET 56
           MGG+GKTTL+ ++  K R     FD  ++  VS+   +K+IQ+ I ++L L     +++T
Sbjct: 183 MGGVGKTTLLSQINNKFRTVSNDFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKT 242

Query: 57  ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
           E+  AS +   L+ + K +++LD++W +VDL  +GIP      G K+  T+R   V   M
Sbjct: 243 ENEIASTIKRSLENK-KYMLLLDDMWTKVDLANIGIPV-PKRNGSKIAFTSRSNEVCGKM 300

Query: 117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENR-ELKSTATEVAKACKGLPIALTTIARAL- 174
           G +K   V  L  ++AW LF     + +E+  ++   A  +A+ C GLP+AL  I   + 
Sbjct: 301 GVDKEIEVTCLMWDDAWDLFTRNMKETLESHPKIPEVAKSIARKCNGLPLALNVIGETMA 360

Query: 175 RNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGN-- 232
           R KS+ +W   +          F G+ A+    ++ SY+ L+ EK K+ FL  +L     
Sbjct: 361 RKKSIEEWHDAVGV--------FSGIEADILSILKFSYDDLKCEKTKSCFLFSALFPEDY 412

Query: 233 EIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRA 292
           EI   DL +Y +  GI  G    +      Y +I  L   +LL   +  EK+ MHDVVR 
Sbjct: 413 EIGKDDLIEYWVGQGIILG---SKGINYKGYTIIGTLTRAYLLKESETKEKVKMHDVVRE 469

Query: 293 VA--ISIACRDQ---NALVVR-NEEVWEWP---DEDALRKCYAISIRDSSIHELLEGLEC 343
           +A  IS  C DQ   N LVV  N ++ + P   D+ A+R+   +S+  + I E  E L C
Sbjct: 470 MALWISSGCGDQKQKNVLVVEANAQLRDIPKIEDQKAVRR---MSLIYNQIEEACESLHC 526

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
           P+LE L +  N       +  +F + +  L V+D       SL P++  L +        
Sbjct: 527 PKLETLLLRDNRLR---KISREFLSHVPILMVLD------LSLNPNLIELPSF------- 570

Query: 404 CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL 463
                      L +L  L+ S +GI  LP+ L  L  L +L+L + + LK I    I  L
Sbjct: 571 ---------SPLYSLRFLNLSCTGITSLPDGLYALRNLLYLNLEHTYMLKRIYE--IHDL 619

Query: 464 IRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKL 523
             LE L +    ++  D+      +  ++  + HL  LT   + ++N + L         
Sbjct: 620 PNLEVLKLYASGIDITDK------LVRQIQAMKHLYLLT---ITLRNSSGL--------- 661

Query: 524 ERFKISVGEAAFLPF--GATSNDACF--RLSWPLFMINDSETLRTL-----KLKLNSTTI 574
              +I +G+  F  +  G T ++  +   L  PL  I+ S  L        K+++  ++ 
Sbjct: 662 ---EIFLGDTRFSSYTEGLTLDEQSYYQSLKVPLATISSSRFLEIQDSHIPKIEIEGSSS 718

Query: 575 SSKKLEGIK--------NVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIV 626
           +  ++ G +        N+  + LD   G+K++ + +       L  L+V   PD   I+
Sbjct: 719 NESEIVGPRVRRDISFINLRKVRLDNCTGLKDLTWLVFA---PHLATLYVVCLPDIEHII 775

Query: 627 DSMERVPLHDA--------FPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQ 678
              E   L           F  LE L L NL +L+ I +D L    F +LK I ++ C +
Sbjct: 776 SRSEESRLQKTCELAGVIPFRELEFLTLRNLGQLKSIYRDPL---LFGKLKEINIKSCPK 832

Query: 679 LSNIFLLSAA 688
           L+ + L S +
Sbjct: 833 LTKLPLDSRS 842

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	1247
296087872	1152	unnamed protein product [Vitis vinifera]	0.874	0.946	0.402	0.0
359488108	1436	PREDICTED: disease resistance protein At	0.931	0.808	0.390	0.0
224111296	1315	cc-nbs-lrr resistance protein [Populus t	0.885	0.839	0.387	0.0
255563252	1603	Disease resistance protein RPS5, putativ	0.870	0.677	0.405	0.0
224143316	1337	cc-nbs-lrr resistance protein [Populus t	0.890	0.830	0.389	0.0
224111284	1340	cc-nbs-lrr resistance protein [Populus t	0.906	0.844	0.379	0.0
255542484	2460	phosphoprotein phosphatase, putative [Ri	0.893	0.452	0.370	0.0
224083434	1144	cc-nbs-lrr resistance protein [Populus t	0.706	0.770	0.435	0.0
359488095	1347	PREDICTED: probable disease resistance p	0.870	0.805	0.359	0.0
147865073	1694	hypothetical protein VITISV_021876 [Viti	0.873	0.642	0.360	0.0

>gi|296087872|emb|CBI35155.3| unnamed protein product [Vitis vinifera]

 Score =  748 bits (1930), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 475/1180 (40%), Positives = 681/1180 (57%), Gaps = 90/1180 (7%)

Query: 1    MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSR 60
            M G+GKTTL+K+VA++A ++KLFD+VV + +S T ++KKIQ  +A+ LGL  +EE+E  R
Sbjct: 1    MAGVGKTTLMKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEMGR 60

Query: 61   ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFS-MGSE 119
            A+RL E+LK+ +KILIILD+IW  +DLE VGIPFGDDH+GCK++LT+R++ +L + MG++
Sbjct: 61   AARLCERLKKVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHILSNEMGTQ 120

Query: 120  KNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSM 179
            K+F V+ L+EEEA  LFK MAGD +E  +L+S A +VAK C GLPIA+ T+A+AL+NK +
Sbjct: 121  KDFPVEHLQEEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNKGL 180

Query: 180  PQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDL 239
              W+  L+QL+     N  G+ A  Y T+ELSY +LEG+++K++FLLC LM N+I   DL
Sbjct: 181  SIWEDALRQLKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVKSLFLLCGLMSNKIYIDDL 240

Query: 240  FKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIAC 299
             KY M L +F+G +T+E A+     L+  L+   LLL   +N  + MHDVVR VAI+I  
Sbjct: 241  LKYGMGLRLFQGTNTLEEAKNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVRDVAIAIVS 300

Query: 300  RDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVE 359
            +      +R +E+ EWP  D L+ C  +S+  + I EL   L CP+LE L++  +     
Sbjct: 301  KVHRVFSLREDELVEWPKMDELQTCTKMSLAYNDICELPIELVCPELE-LFLFYHTIDYH 359

Query: 360  INVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLE 419
            + +PE FF  MKKLKV+D   M F SLP S+  L NL+TL L+ C LGD++II +LK LE
Sbjct: 360  LKIPETFFEEMKKLKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDISIIVELKKLE 419

Query: 420  ILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWE 479
              SF GS I KLP E+ QLT LR  DL +C KL+ I PNVISSL +LE L M N F  WE
Sbjct: 420  FFSFMGSNIEKLPREIAQLTHLRLFDLRDCSKLREIPPNVISSLSKLENLCMENSFTLWE 479

Query: 480  DEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFG 539
             EG +    N+ + E  +LP LTTL++ + +  +L       KL R++I +G+       
Sbjct: 480  VEGKS----NASIAEFKYLPYLTTLDIQIPDAELLLTDVLFEKLIRYRIFIGDV------ 529

Query: 540  ATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI----KNVEYLCLDKLQG 595
                      SW      D     T  LKLN    S +  +GI    K  + L L +L G
Sbjct: 530  ---------WSW------DKNCPTTKTLKLNKLDTSLRLADGISLLLKGAKDLHLRELSG 574

Query: 596  IKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERI 655
              NV  +LD EGF QLK LHV+ +P+   I++SM+ +    AFP+LESL L  L+ L+ +
Sbjct: 575  AANVFPKLDREGFLQLKCLHVERSPEMQHIMNSMDPILSPCAFPVLESLFLNQLINLQEV 634

Query: 656  CQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVG--G 713
            C  +L V SF+ L+ ++VE+C  L  +F +S A+ L RLE I +  C+N+ ++ A G   
Sbjct: 635  CHGQLLVGSFSYLRIVKVEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGKED 694

Query: 714  GDVVIDHQKIEFGQLRTLCLGNLPVLRSFC-----------REVEKNRQAQGL------- 755
            GD  +D   I F +LR L L +LP LR+FC           R    N +  G+       
Sbjct: 695  GDDAVD--AILFAELRYLTLQHLPKLRNFCLEGKTMPSTTKRSPTTNVRFNGICSEGELD 752

Query: 756  -------QETCYNEI---------------------SRLKDKLDTSSPLLNEKVVFPSLE 787
                   Q  C++ I                     S L++  D     + E V    L 
Sbjct: 753  NQTSVFNQLVCHSSIILSNYMLKRLQSLQFLKAVDCSSLEEVFDMEGINVKEAVAVTQLS 812

Query: 788  ALDLRQI-NVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEI 846
             L L+ +  V++IW+ +    +   FQNL  +++  C  LK +F AS++R    LQ L++
Sbjct: 813  KLILQFLPKVKQIWNKEPRGIL--TFQNLKSVMIDQCQSLKNLFPASLVRDLVQLQELQV 870

Query: 847  ACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVL 906
              C    E+I       +    FVFP +T+LRL  L +L+S YPG HTS+WP LK L V 
Sbjct: 871  WSCGI--EVIVAKDNGVKTAAKFVFPKVTSLRLSHLHQLRSFYPGAHTSQWPLLKELKVH 928

Query: 907  ACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKV-FPNLEELGLNGKDIRMIWHGN 965
             C +V +FA E   F +I     LD    Q LF +++V FPNLEEL L+  +   IW   
Sbjct: 929  ECPEVDLFAFETPTFQQIHHMGNLDMLIHQPLFLVQQVAFPNLEELTLDYNNATEIWQEQ 988

Query: 966  FPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGC-SCKEILSNDGHLDKHG 1024
            FP + F  L+VL + +        P  +L+R +NLEKL +  C S KEI   +GH +++ 
Sbjct: 989  FPVNSFCRLRVLNVCEYGDILVVIPSFMLQRLHNLEKLNVKRCSSVKEIFQLEGHDEENQ 1048

Query: 1025 GK-LAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNL 1083
             K L +++ + L  L  L  LWKE+S+     Q ++ + +  CDSL+ L P  SVSF NL
Sbjct: 1049 AKMLGRLREIWLRDLPGLTHLWKENSKPGLDLQSLESLEVWNCDSLINLAP-CSVSFQNL 1107

Query: 1084 TSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQV 1123
             +L+V SC  L +L++   AKSLV L K+++ G   M  V
Sbjct: 1108 DTLDVWSCGSLKSLISPLVAKSLVKLKKLKIGGSHMMEVV 1147

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488108|ref|XP_003633701.1| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  741 bits (1912), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 495/1269 (39%), Positives = 714/1269 (56%), Gaps = 108/1269 (8%)

Query: 1    MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSR 60
            +GG+GKTTLVK+VA +A ++KLFD+VV + V +T D+KKIQ  +A+ LG+  +EE+E  R
Sbjct: 183  LGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQGR 242

Query: 61   ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFS-MGSE 119
            A+RL++++  E+ ILIILD+IW ++DLE +GIP  D H+GCKL+LT+R+  +L + M ++
Sbjct: 243  AARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEMDTQ 302

Query: 120  KNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSM 179
            K+F V  L+E+E W LFK  AG  +EN EL+  A +VAK C GLP+A+ T+A+AL+NK++
Sbjct: 303  KDFRVQPLQEDETWILFKNTAGS-IENPELQPIAVDVAKECAGLPLAIVTVAKALKNKNV 361

Query: 180  PQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMG-NEIATSD 238
              WK  LQQL+  +L N  G+    Y +++LSY +L+G ++K+ FLLC L+  N+I+  D
Sbjct: 362  SIWKDALQQLKSQTLTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGLISQNDISIRD 421

Query: 239  LFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIA 298
            L KY + L +F+G +T+E A+    AL+  L+    LL   +N  + MHD+VR+ A  IA
Sbjct: 422  LLKYGVGLRLFQGTNTLEEAKNRIDALVDNLKSSNFLLETGHNAFVRMHDLVRSTARKIA 481

Query: 299  CRDQNALVVRNE--EVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLE-FLYMDSNG 355
                +   ++N    V  WP  D L+K   +S+ D  I EL EGL CP+LE F   D N 
Sbjct: 482  SDQHHVFTLQNTTVRVEGWPRIDELQKVTWVSLHDCDIRELPEGLACPKLELFGCYDVNT 541

Query: 356  SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKL 415
            +S  + +P  FF  MK+LKV+D  RMQ  SLP S     NL+TLCLD C LG++ II +L
Sbjct: 542  NSA-VQIPNNFFEEMKQLKVLDLSRMQLPSLPLSCHCRTNLRTLCLDGCNLGEIVIIAEL 600

Query: 416  KNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF 475
            K LEILS + S I KLP E+ QLT LR  DL   +KLKVI P+VISSL +LE+L M N F
Sbjct: 601  KKLEILSLTYSDIEKLPREIAQLTHLRLFDLKGSYKLKVIPPDVISSLSQLEDLCMENSF 660

Query: 476  VEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAF 535
             +WE EG +    N+ L EL HL  LT+L++ + +  +LP+      L R++I VG+   
Sbjct: 661  TQWEGEGKS----NACLAELKHLSHLTSLDIQIPDAKLLPKDIVFDTLVRYRIFVGDV-- 714

Query: 536  LPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI----KNVEYLCLD 591
                          SW       SE  +T  L+LN    S   ++GI    K  E L L 
Sbjct: 715  -------------WSWGGI----SEANKT--LQLNKFDTSLHLVDGIIKLLKRTEDLHLR 755

Query: 592  KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMK 651
            +L G  NVL +LD EGF +LKHL+V+++P+   IV+SM+  P H AFP++E+L+L  L+ 
Sbjct: 756  ELCGGTNVLSKLDGEGFLKLKHLNVESSPEIQYIVNSMDLTPSHGAFPVMETLSLNQLIN 815

Query: 652  LERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAV 711
            L+ +C+ +    SF  L+ + VE C  L  +F LS A+ L RLE   V  C+++ E+ + 
Sbjct: 816  LQEVCRGQFPAGSFGCLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCKSMVEMVSQ 875

Query: 712  GGGDVVIDHQKIE-FGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKL 770
            G  ++  D   +  F +LR+L L +LP L +FC   E+N        T           +
Sbjct: 876  GRKEIKEDAVNVPLFPELRSLTLEDLPKLSNFC--FEENPVLSKPASTI----------V 923

Query: 771  DTSSPLLNE------KVVFPSLEALDLRQINVEKIWHDQLSAAMFP--CFQNLTRLILWI 822
              S+P LN+      +++F SL   +LR +N++K         +FP    QNL  L +  
Sbjct: 924  GPSTPPLNQPEIRDGQLLF-SLGG-NLRSLNLKKCMS---LLKLFPPSLLQNLQELTVEN 978

Query: 823  CPKLKYVFSASMLRS-------FEHLQHLEIACCERLQEIISKGGTDDQVTP-------- 867
            C KL+ VF    L            L  L +    +L+ I + G + +            
Sbjct: 979  CDKLEQVFDLEELNVDDGHVGLLPKLGKLRLIDLPKLRHICNCGSSRNHFPSSMASAPVG 1038

Query: 868  NFVFPGLTTLRLIGLPKLKS-LYPGMHT------------------SEWPALKVLNVLAC 908
            N +FP L  + L  LP L S + PG H+                    WP L+ L V  C
Sbjct: 1039 NIIFPKLFYISLGFLPNLTSFVSPGYHSLQRLHHADLDTPFPVLFDERWPLLEELRVSEC 1098

Query: 909  DQVTVFASELFHFCKISEENKLDTPARQSLFFLEKV-FPNLEELGLNGKDIRMIWHGNFP 967
             ++ VFA E   F +   E  LD P    LFFL  V FPNLEEL L       IW   FP
Sbjct: 1099 YKLDVFAFETPTFQQRHGEGNLDMP----LFFLPHVAFPNLEELRLGDNRDTEIWPEQFP 1154

Query: 968  QHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGC-SCKEILSNDGHLDK--HG 1024
               F  L+VL + D        P  +L+R +NLE L++  C S KE+   +G LD+    
Sbjct: 1155 VDSFPRLRVLHVHDYRDILVVIPSFMLQRLHNLEVLKVGSCSSVKEVFQLEG-LDEENQA 1213

Query: 1025 GKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLT 1084
             +L +++ + L  L  L +LWKE+S+     Q ++ + +  C SL+ L+P SSVSF NL 
Sbjct: 1214 KRLGRLREIELHDLPGLTRLWKENSEPGLDLQSLESLEVWNCGSLINLVP-SSVSFQNLA 1272

Query: 1085 SLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRL 1144
            +L+V SC  L +L++ S AKSLV L  +++     M +VV +EG + A +EI F KL+ +
Sbjct: 1273 TLDVQSCGSLRSLISPSVAKSLVKLKTLKIGRSDMMEEVVANEGGE-ATDEITFYKLQHM 1331

Query: 1145 SLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGELSTPPRVDVMYRDTGPPCW 1204
             L+ L +L SF SG YIF FPSLE + V  CPKM +F+   L TPPR+  +        W
Sbjct: 1332 ELLYLPNLTSFSSGGYIFSFPSLEQMLVKECPKMKMFSPS-LVTPPRLKRIKVGDEEWPW 1390

Query: 1205 DGDLNTTIR 1213
              DLNT I 
Sbjct: 1391 QDDLNTAIH 1399

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111296|ref|XP_002332952.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834264|gb|EEE72741.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  722 bits (1863), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 463/1194 (38%), Positives = 678/1194 (56%), Gaps = 90/1194 (7%)

Query: 1    MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSR 60
            M G+GKTTLVK+VA + ++ +LFD+ V + VS T DI++IQ  IA+ LGL L  ET+  R
Sbjct: 176  MPGVGKTTLVKKVAEQVKEGRLFDKEVLAVVSHTPDIRRIQGEIADGLGLKLDAETDKGR 235

Query: 61   ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLF-SMGSE 119
            AS+L+E+LK+  ++L+ILD+IWK + LE VGIP G DH GCK+L+++R+  VL   MGS 
Sbjct: 236  ASQLYERLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMSSRNEYVLSREMGSN 295

Query: 120  KNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSM 179
            +NF + +L   EAW LF+ M G  V+   ++  A EVA+ C GLPI L T+ARAL+NK +
Sbjct: 296  RNFPIQVLPASEAWNLFEKMVGVAVKKHSVRLVAAEVARRCAGLPILLATVARALKNKDL 355

Query: 180  PQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCS-LMGNEIATSD 238
              WK  L+QL   +  +   +  + YL +ELSY  L G+++K++FLLC  L  N I  SD
Sbjct: 356  YAWKKALKQL---TRFDKDDIDDQVYLGLELSYKSLRGDEIKSLFLLCGQLRSNNILISD 412

Query: 239  LFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIA 298
            L +Y + L +FKG  T+E  R +   L+ +L+   LLL GD +  + MHDVV + AIS+A
Sbjct: 413  LLRYGIGLDLFKGCSTLEETRNSLLTLVDELKASCLLLEGDKDGSVKMHDVVHSFAISVA 472

Query: 299  CRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL-EFLYMDSNGSS 357
             RD + L V  +E  EWP  D L++  AIS+    I +L   LECP L  FL ++ + S 
Sbjct: 473  LRDHHVLTVA-DEFKEWPANDVLQQYTAISLPFRKIPDLPAILECPNLNSFLLLNKDPS- 530

Query: 358  VEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKN 417
              + +P+ FF  MK+LK++D   +    LP S+  L NLQTLCLD C+L D++IIG+L  
Sbjct: 531  --LQIPDSFFREMKELKILDLTEVNLSPLPSSLQFLENLQTLCLDHCVLEDISIIGELNK 588

Query: 418  LEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVE 477
            L++LS   S IV+LP E+G++T+L+ LDLSNC +L+VI+PN +SSL RLE+LYM N FV+
Sbjct: 589  LKVLSLMSSNIVRLPREIGKVTRLQLLDLSNCERLEVISPNALSSLTRLEDLYMGNSFVK 648

Query: 478  WEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFA--RKLERFKISVGEAAF 535
            WE EG +S+  N+ L EL HL  L+TL + + + + +P+  F+  + LERF+I +G+   
Sbjct: 649  WETEGSSSQRNNACLSELKHLSNLSTLHMQITDADNMPKDLFSSFQNLERFRIFIGDG-- 706

Query: 536  LPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEG-IKNVEYLCLDKLQ 594
                           W  + + D+ T RTLKLKLN+     + +   +K  E L L +L 
Sbjct: 707  ---------------WD-WSVKDA-TSRTLKLKLNTVIQLEEGVNTLLKITEELHLQELN 749

Query: 595  GIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLER 654
            G+K++L +LD EGF QL+HLHVQN P    I++S+   P   AF  L+SL L NL  LE+
Sbjct: 750  GVKSILNDLDGEGFPQLRHLHVQNCPGVQYIINSIRMGP-RTAFLNLDSLFLENLDNLEK 808

Query: 655  ICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGG 714
            IC  +L  +S   L+ ++VE C +L N+F +S A+ L RLE I +I+C+ ++E+ A    
Sbjct: 809  ICHGQLMAESLGNLRILKVESCHRLKNLFSVSMARRLVRLEEITIIDCKIMEEVVAEESE 868

Query: 715  DVVIDHQK-IEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKD----- 768
            +   D +  IEF QLR L L  LP   SF   VE++  +Q  Q+   +E +R K+     
Sbjct: 869  NDAADGEPIIEFTQLRRLTLQCLPQFTSFHSNVEESSDSQRRQKLLASE-ARSKEIVAGN 927

Query: 769  KLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKY 828
            +L TS  L N K++FP+LE L L  I VEKIWHDQ S    PC +NL  + +  C  L Y
Sbjct: 928  ELGTSMSLFNTKILFPNLEDLKLSSIKVEKIWHDQPSVQS-PCVKNLASIAVENCRNLNY 986

Query: 829  VFSASMLRSFEHLQHLEIACCERLQEI-ISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKS 887
            + ++SM+ S   L+ LEI  C+ ++EI + +   + ++    +FP L  L LI LPKL +
Sbjct: 987  LLTSSMVESLAQLKKLEICNCKSMEEIVVPEDIGEGKMMSKMLFPKLLILSLIRLPKL-T 1045

Query: 888  LYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPA------RQSLFFL 941
             +   +  E  +LKVL V  C ++  F         IS  +  D PA       +S  F 
Sbjct: 1046 RFCTSNLLECHSLKVLTVGNCPELKEF---------ISIPSSADVPAMSKPDNTKSALFD 1096

Query: 942  EKV-FPNLEELGLNGKD-IRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNN 999
            +KV FP+LEE  +   D +++IWH       F  LK L +         FP  +L RF+N
Sbjct: 1097 DKVAFPDLEEFLIAEMDNLKVIWHSELHSDSFCKLKTLHVVLVKNLLNIFPSSMLRRFHN 1156

Query: 1000 LEKLRLDGCSCKEILSNDGHLDKHGGKLA----QIKSLRLVRLNDLNQLWKEDSQMDSMF 1055
            LE L +  C   E + +   L     +LA    Q++ +RL  L  L  +W  D       
Sbjct: 1157 LENLTIGACDSVEEIFDLQELINVEQRLAVTASQLRVVRLTNLPHLKHVWNRD------- 1209

Query: 1056 QYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVF 1115
                              P   +SF NL  + V  C  L +L  +S A +L+ L +  + 
Sbjct: 1210 ------------------PQGILSFHNLCIVHVRGCLGLRSLFPASVALNLLQLEEFLIV 1251

Query: 1116 GCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEY 1169
             C     V K EG +    E +F K+  L LV++  L  F  G +  ++P L +
Sbjct: 1252 NCGVEEIVAKDEGLE-EGPEFLFPKVTYLHLVEVPELKRFYPGIHTSEWPRLNF 1304

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255563252|ref|XP_002522629.1| Disease resistance protein RPS5, putative [Ricinus communis] gi|223538105|gb|EEF39716.1| Disease resistance protein RPS5, putative [Ricinus communis]

 Score =  715 bits (1845), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 472/1165 (40%), Positives = 671/1165 (57%), Gaps = 79/1165 (6%)

Query: 6    KTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLH 65
            KTTL KEV ++  ++KLFD VV + VS+  DI+KIQ  IA+ LGL   EETE+ RA RL 
Sbjct: 188  KTTLAKEVHQQVIEEKLFDIVVMATVSEKPDIRKIQGNIADVLGLKFDEETETGRAYRLR 247

Query: 66   EQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLF-SMGSEKNFLV 124
            ++L  E+KIL+ILDNIW +++LE VGIP G DH+GCK+LLT+R R +L   MG +K F +
Sbjct: 248  QRLMTEKKILVILDNIWAQLELEEVGIPCGVDHKGCKILLTSRSRDLLSCDMGVQKVFRL 307

Query: 125  DILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKT 184
            ++L+EEEA  LF++M GD V+  E +S A+EV K C GLP+ + TIARAL+NK +  WK 
Sbjct: 308  EVLQEEEALSLFEMMVGD-VKGGEFQSAASEVTKKCAGLPVLIVTIARALKNKDLYVWKD 366

Query: 185  TLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMG-NEIATSDLFKYC 243
             ++QL   S  +   +  + Y  +ELSYN+L G ++K++FLLC L+G ++IA  DL  Y 
Sbjct: 367  AVKQL---SRCDNEEIQEKVYSALELSYNHLIGAEVKSLFLLCGLLGKSDIAILDLLMYS 423

Query: 244  MCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQN 303
              LG+FKG+DT+ +AR   + LI  L+   LLL  D   ++ +HDVVR VAISIA R Q+
Sbjct: 424  TGLGLFKGIDTLGDARNRVHKLISDLKAACLLLDSDIKGRVKIHDVVRDVAISIASRMQH 483

Query: 304  ALVVRNEEVW-EWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINV 362
               VRN  +  EWP++D  + C  IS+  + IH L E LECP+LE   + +    + + V
Sbjct: 484  LFTVRNGALLKEWPNKDVCKSCTRISLPYNDIHGLPEVLECPELELFLLFTQ--DISLKV 541

Query: 363  PEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILS 422
            P+  F   K L+V++F  M F SLPPS+  L NL TLCLD C L DVAIIG+L  L ILS
Sbjct: 542  PDLCFELTKNLRVLNFTGMHFSSLPPSLGFLKNLFTLCLDWCALRDVAIIGELTGLTILS 601

Query: 423  FSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG 482
            F  S IV+LP E+ QLTKL+ LDLS+C KLKVI   +IS L +LEELYM+N F  W+ +G
Sbjct: 602  FKHSDIVELPREIRQLTKLKFLDLSHCLKLKVIPAKIISELTQLEELYMNNSFDLWDVQG 661

Query: 483  PNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATS 542
             N++  N+ L EL  LP LTTLE+ V +  ILP+  F RKLERF+I +G+          
Sbjct: 662  INNQR-NASLAELECLPYLTTLEICVLDAKILPKDLFFRKLERFRIFIGDV--------- 711

Query: 543  NDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI--KNVEYLCLDKLQGIKNVL 600
                    W      D  T RTLKLKLN+++I  +    I  +  E L L +++GIK+VL
Sbjct: 712  --------WS--GTGDYGTSRTLKLKLNTSSIHLEHGLSILLEVTEDLYLAEVKGIKSVL 761

Query: 601  FELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRL 660
            ++LD++GF+QLKHL VQN+P+   I+D   R P  +AFP+LESL L NLM LE+IC  +L
Sbjct: 762  YDLDSQGFTQLKHLDVQNDPEIQYIIDPNRRSPC-NAFPILESLYLDNLMSLEKICCGKL 820

Query: 661  SVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDH 720
            +  SF++L+++ V  C +L N+F  S  +CL +L+ + V++C N++EI A G  D   D+
Sbjct: 821  TTGSFSKLRSLTVVKCDRLKNLFSFSMMRCLLQLQQMKVVDCANLEEIVACGSEDTDNDY 880

Query: 721  QKIEFGQLRTLCLGNLPVLRSFCRE-----VEKNRQAQGLQETCYNEISRLKDKLDTSSP 775
            + ++  QL +L L  LP+ +SFC +     +    Q Q   +T   EI+  K +L    P
Sbjct: 881  EAVKLTQLCSLTLKRLPMFKSFCSKKKVSPISLRVQKQLTTDTGLKEIAP-KGELGDPLP 939

Query: 776  LLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASML 835
            L NE   FP+LE L+L  I  EKI  DQLSA       NL  LI+  C  LKY+F++S++
Sbjct: 940  LFNEMFCFPNLENLELSSIACEKICDDQLSAIS----SNLMSLIVERCWNLKYLFTSSLV 995

Query: 836  RSFEHLQHLEIACCERLQEII-SKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHT 894
            ++   L+ LE+  C  ++ II ++   +++     +FP L  L+L  LP +     G + 
Sbjct: 996  KNLLLLKRLEVFDCMSVEGIIVAEELVEEERNRKKLFPELDFLKLKNLPHITRFCDG-YP 1054

Query: 895  SEWPALKVLNVLACDQVTVFASELFHFCKI---------SEENKLDTPARQSLFFLEKVF 945
             E+ +L+ L +  C  + +F S+      I         SE+N       Q LF  +  F
Sbjct: 1055 VEFSSLRKLLIENCPALNMFVSKSPSADMIESREAKGMNSEKNH--HTETQPLFNEKVAF 1112

Query: 946  PNLEELGLNGKD-IRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLR 1004
            P+LEE+ L+  D +R IWH       F  LK++R+         FP  LLERF  LEKL 
Sbjct: 1113 PSLEEIELSYIDNLRRIWHNQLDAGSFCKLKIMRINGCKKLRTIFPSYLLERFQCLEKLS 1172

Query: 1005 LDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIH 1064
            L  C   E +     L+     L     LR + +  L QL                    
Sbjct: 1173 LSDCYALEEIYELQGLNFKEKHLLATSGLRELYIRSLPQL-------------------- 1212

Query: 1065 GCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVV 1124
               S+L   P  + +F NL  +++S C  + NL  +S A  L+ L K+ +  C  M ++ 
Sbjct: 1213 --KSILSKDPQGNFTFLNLRLVDISYC-SMKNLFPASVATGLLQLEKLVINHCFWMEEIF 1269

Query: 1125 KSEGNQLAKEEIVFSKLKRLSLVDL 1149
              E         VF +L  L L DL
Sbjct: 1270 AKEKGGETAPSFVFLQLTSLELSDL 1294

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224143316|ref|XP_002336027.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222838884|gb|EEE77235.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  706 bits (1822), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 466/1196 (38%), Positives = 673/1196 (56%), Gaps = 85/1196 (7%)

Query: 6    KTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLH 65
            KTTL K+VA + ++ +LFD+VV + VS T DI++IQ  IA+ LGL L  ET+  RAS+L 
Sbjct: 181  KTTLAKKVAEQVKEGRLFDKVVLALVSPTPDIRRIQGEIADGLGLKLDAETDKGRASQLC 240

Query: 66   EQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLF-SMGSEKNFLV 124
              LK+   +L+ILD+IWK + LE VGIP G DH GCK+L+T+R++ +L   MG+ +NF +
Sbjct: 241  RGLKKVTTVLVILDDIWKELKLEDVGIPSGSDHEGCKILMTSRNKNILSREMGANRNFQI 300

Query: 125  DILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKT 184
             IL   EAW  F+ M G  V+N  ++  A EVAK C GLPI L T+ARAL+N+ +  WK 
Sbjct: 301  QILPVREAWNFFEKMVGVTVKNPSVQLVAAEVAKRCAGLPILLATVARALKNEDLYAWKE 360

Query: 185  TLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCS-LMGNEIATSDLFKYC 243
             L QL   +  +   +   AY  +ELSY  L  +++K++FLLC  ++  +   SDL KY 
Sbjct: 361  ALTQL---TRFDKDDIDKTAYSCLELSYKALRDDEIKSLFLLCGQILTYDALISDLLKYA 417

Query: 244  MCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQN 303
            + L +FKG  T E AR   + L+ +L+   LLL GDN+  + MHDVVR+ AIS+A RD +
Sbjct: 418  IGLDLFKGRSTSEEARNRLHTLVDELKASCLLLEGDNDGSVKMHDVVRSFAISVALRDHH 477

Query: 304  ALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVP 363
             L+V +E   EWP  D L++  AIS+    I +L   LECP L    + S   S++I  P
Sbjct: 478  VLIVADE-FKEWPTNDVLQQYTAISLPFRKIPDLPAILECPNLNSFLLLSTDPSLQI--P 534

Query: 364  EKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSF 423
            E FF  MK+LKV+D   +    LP S+  L NLQTLCLD C+L D++I+G+LK L++LS 
Sbjct: 535  ENFFREMKELKVLDLTGVNLSPLPSSLQFLENLQTLCLDFCVLEDISIVGELKKLKVLSL 594

Query: 424  SGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGP 483
             GS IV LP E+G+LT+L  LDLSNC +L+VI+PNV+SSL RLEELYM N F++WE EGP
Sbjct: 595  MGSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGNSFLKWEAEGP 654

Query: 484  NSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFA--RKLERFKISVGEAAFLPFGAT 541
            +SE  ++ L EL  L  L TL++ + + + +P+  F   +KLERF+I +G+         
Sbjct: 655  SSERNSACLSELKLLANLITLDMQITDADHMPKDLFLCFQKLERFRIFIGDG-------- 706

Query: 542  SNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEG-IKNVEYLCLDKLQGIKNVL 600
                     W +       T RTLKLKLN+     +++   +K  E L L +L G+K++L
Sbjct: 707  -------WDWSV----KYATSRTLKLKLNTVIQLEERVNTLLKITEELHLQELNGVKSIL 755

Query: 601  FELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRL 660
             +LD EGF QLK LHVQN P    I++SM   P   AF  L+SL L NL  LE+IC  +L
Sbjct: 756  NDLDEEGFCQLKDLHVQNCPGVQYIINSMRMGP-RTAFLNLDSLFLENLDNLEKICHGQL 814

Query: 661  SVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDH 720
              +S   L+ ++VE C +L N+F +S A+ + RLE I +I+C+ ++E+ A    +   D 
Sbjct: 815  MAESLGNLRILKVESCHRLKNLFSVSIARRVVRLEEITIIDCKIMEEVVAEESENDTADG 874

Query: 721  QKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEK 780
            + IEF QLR L L  LP   SF      NR+ + L     ++     ++L TS  L N K
Sbjct: 875  EPIEFTQLRRLTLQCLPQFTSF----HSNRRQKLLASDVRSKEIVAGNELGTSMSLFNTK 930

Query: 781  VVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEH 840
            ++FP LE L L  I VEKIWHDQ  A   PC +NL  +++  C  L Y+ ++SM+ S   
Sbjct: 931  ILFPKLEDLMLSSIKVEKIWHDQ-HAVQPPCVKNLASIVVESCSNLNYLLTSSMVESLAQ 989

Query: 841  LQHLEIACCERLQEI-ISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPA 899
            L+ LEI  C+ ++EI + +G  + ++    +FP L  L LI LPKL + +   +  E  +
Sbjct: 990  LKSLEICNCKSMEEIVVPEGIGEGKMMSKMLFPKLHILSLIRLPKL-TRFCTSNLLECHS 1048

Query: 900  LKVLNVLACDQVTVFASELFHFCKISEENKLDTPA------RQSLFFLEKV-FPNLEE-L 951
            LKVL +  C ++  F         IS  +  D PA       +S  F +KV FPNL   +
Sbjct: 1049 LKVLTLGKCPELKEF---------ISIPSSADVPAMSKPDNTKSALFDDKVAFPNLVVFV 1099

Query: 952  GLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCK 1011
                 ++++IWH       F  LK+L +         FP  +L RF+NLE L ++ C   
Sbjct: 1100 SFEMDNLKVIWHNELHPDSFCRLKILHVGHGKNLLNIFPSSMLGRFHNLENLVINDCDSV 1159

Query: 1012 EILSNDGHLDKHGGKLA----QIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCD 1067
            E + +   L     +LA    Q++ +RL  L  L  +W  D                   
Sbjct: 1160 EEIFDLQALINVEQRLAVTASQLRVVRLTNLPHLKHVWNRD------------------- 1200

Query: 1068 SLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSE 1127
                  P   VSF NL ++ V  C  L +L  +S A++L+ L ++++  C     V K E
Sbjct: 1201 ------PQGIVSFHNLCTVHVQGCLGLRSLFPASIAQNLLQLEELRIDKCGVEEIVAKDE 1254

Query: 1128 GNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTT 1183
            G +    E VF K+  L L +L  L  F  G +  ++P L+ L V  C K+ IF +
Sbjct: 1255 GLE-EGPEFVFPKVTFLQLRELPELKRFYPGIHTSEWPRLKTLRVYDCEKIEIFPS 1309

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224111284|ref|XP_002332949.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222834261|gb|EEE72738.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  700 bits (1807), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 467/1230 (37%), Positives = 687/1230 (55%), Gaps = 99/1230 (8%)

Query: 6    KTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLH 65
            KTTL K+VA + ++ +LFD+VV + VS T DI++IQ  IA+ LGL L  ET+  RA +L 
Sbjct: 181  KTTLAKKVAEQVKEGRLFDKVVLAVVSHTPDIRRIQGEIADGLGLKLNAETDKGRADQLC 240

Query: 66   EQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLF-SMGSEKNFLV 124
            E LK+  ++L+ILD+IWK + LE VGIP G DH GCK+L+T+R++ VL   MG+ +NF V
Sbjct: 241  EGLKKVTRVLVILDDIWKELKLEDVGIPSGSDHEGCKILMTSRNKNVLSREMGANRNFQV 300

Query: 125  DILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKT 184
             +L   EAW  F+ M G  V+N  ++  A EVAK C GLPI L T+ARAL+N+ +  WK 
Sbjct: 301  QVLPVREAWNFFEKMVGVTVKNPSVQPVAAEVAKRCAGLPILLATVARALKNEDLYAWKD 360

Query: 185  TLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCS-LMGNEIATSDLFKYC 243
             L+QL   +  +   +  + Y  +ELSY  L G+++K++FLLC   +  + + SDL KY 
Sbjct: 361  ALKQL---TRFDKDEIDNQVYSCLELSYKALRGDEIKSLFLLCGQFLTYDSSISDLLKYA 417

Query: 244  MCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQN 303
            + L +FKG  T+E AR     L+ +L+   LLL GD + ++ MHDVV++ A S+A RD +
Sbjct: 418  IGLDLFKGRSTLEEARNRLRTLVDELKASCLLLEGDKDGRVKMHDVVQSFAFSVASRDHH 477

Query: 304  ALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL-EFLYMDSNGSSVEINV 362
             L+V +E   EWP  D L++  AIS+    I +L   LECP L  F+ ++ + S   + +
Sbjct: 478  VLIVADE-FKEWPTSDVLQQYTAISLPYRKIPDLPAILECPNLNSFILLNKDPS---LQI 533

Query: 363  PEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILS 422
            P+ FF  MK+LKV+D  R+    LP S+  L NLQTLCLD C+L D++I+G+LK L++LS
Sbjct: 534  PDNFFREMKELKVLDLTRVNLSPLPSSLQFLENLQTLCLDGCVLEDISIVGELKKLKVLS 593

Query: 423  FSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG 482
               S IV LP E+G+LT+L  LDLSNC +L+VI+PNV+SSL RLEELYM N FV+WE EG
Sbjct: 594  LISSDIVCLPREIGKLTRLLLLDLSNCERLEVISPNVLSSLTRLEELYMGNSFVKWETEG 653

Query: 483  PNSETINSRLDELMHLPRLTTLEVHVKN-DNILPE-GFFARKLERFKISVGEAAFLPFGA 540
             +S+  N+ L EL  L  L TL + + + DN+L +  F  +KLERF+I +G+        
Sbjct: 654  SSSQRNNACLSELKRLSNLITLHMQITDADNMLKDLSFLFQKLERFRIFIGDG------- 706

Query: 541  TSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEG-IKNVEYLCLDKLQGIKNV 599
                      W +       T RTLKLKLN+     + +   +K+ E L L +L+G+K++
Sbjct: 707  --------WDWSV----KYATSRTLKLKLNTVIQLEEWVNTLLKSTEELHLQELKGVKSI 754

Query: 600  LFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDR 659
            L +LD E F +LKHLHVQN P    I++S+   P   AF  L+SL L NL  LE+IC  +
Sbjct: 755  LNDLDGEDFPRLKHLHVQNCPGVQYIINSIRMGP-RTAFLNLDSLFLENLDNLEKICHGQ 813

Query: 660  LSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVID 719
            L  +S  +L+ ++VE C +L N+F +S A+ L RLE I +I+C+ ++E+ A    +   D
Sbjct: 814  LMAESLGKLRILKVESCHRLKNLFSVSMARRLVRLEEITIIDCKIMEEVVAEESENDTAD 873

Query: 720  HQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNE 779
             + IEF QLR L L  LP   SF      NR+ + L     ++     ++L TS  L N 
Sbjct: 874  GEPIEFAQLRRLTLQCLPQFTSF----HSNRRQKLLASDVRSKEIVAGNELGTSMSLFNT 929

Query: 780  KVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFE 839
            K++FP+LE L L  I VEKIWHDQ  A   PC +NL  +++  C  L Y+ ++SM+ S  
Sbjct: 930  KILFPNLEDLKLSSIKVEKIWHDQ-PAVQPPCVKNLASMVVESCSNLNYLLTSSMVESLA 988

Query: 840  HLQHLEIACCERLQEI-ISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWP 898
             L+ LEI  CE ++EI + +G  + ++    +FP L  L L GLPKL + +   +  E  
Sbjct: 989  QLERLEICNCESMEEIVVPEGIGEGKMMSKMLFPKLHLLELSGLPKL-TRFCTSNLLECH 1047

Query: 899  ALKVLNVLACDQVTVFASELFHFCKISEENKLDTPA------RQSLFFLEKV-FPNLEE- 950
            +LKVL V  C ++  F         IS  +  D P        +S FF +KV FP+LE  
Sbjct: 1048 SLKVLMVGNCPELKEF---------ISIPSSADVPVMSKPDNTKSAFFDDKVAFPDLEVF 1098

Query: 951  LGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSC 1010
            L     +++ IWH       F  LK+L +         FP  +L R +NLE L ++ C  
Sbjct: 1099 LIFEMDNLKAIWHNELHSDSFCELKILHVGHGKNLLNIFPSSMLGRLHNLENLIINDCDS 1158

Query: 1011 KEILSNDGHLDKHGGKLA----QIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGC 1066
             E + +   L     +LA    Q++ +RL  L  L  +W  D                  
Sbjct: 1159 VEEIFDLQVLINVEQRLADTATQLRVVRLRNLPHLKHVWNRD------------------ 1200

Query: 1067 DSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKS 1126
                   P   +SF NL ++ V  C  L +L  +S A +L+ L ++ +  C     V K 
Sbjct: 1201 -------PQGILSFHNLCTVHVRGCPGLRSLFPASIALNLLQLEELLIENCGVEEIVAKD 1253

Query: 1127 EGNQLAKEEIVFS--KLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTG 1184
            EG +       FS  K+  L LV++  L  F  G ++ ++P L+  +V  C K+ IF   
Sbjct: 1254 EGLEEGPSSFRFSFPKVTYLHLVEVPELKRFYPGVHVSEWPRLKKFWVYHCKKIEIF--- 1310

Query: 1185 ELSTPPRVDVMYRDTGPPCWDGDLNTTIRQ 1214
                P  +   +     PCW+  ++   +Q
Sbjct: 1311 ----PSEIKCSHE----PCWEDHVDIEGQQ 1332

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255542484|ref|XP_002512305.1| phosphoprotein phosphatase, putative [Ricinus communis] gi|223548266|gb|EEF49757.1| phosphoprotein phosphatase, putative [Ricinus communis]

 Score =  680 bits (1755), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 442/1194 (37%), Positives = 661/1194 (55%), Gaps = 80/1194 (6%)

Query: 1    MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSR 60
            +GG+GKTTL+K+V  + ++  +F  V  + V+   D+ KIQQ IA+ LGL    E+   R
Sbjct: 135  LGGVGKTTLLKQVTAQVKETGIFKVVATATVTDNPDLNKIQQDIADWLGLKFDVESTQVR 194

Query: 61   ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEK 120
            A+RL  +LK++EK+L+ILDNIW ++ LE +GIP+G+DH+GCK+L+T+R+  VL +M  ++
Sbjct: 195  AARLRARLKQDEKVLVILDNIWHKIALEELGIPYGNDHKGCKILMTSRNLNVLLAMDVQR 254

Query: 121  NFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMP 180
            +FL+ +L++EEAW+LF+  AG+ V++  L   AT++A+ C GLP+ +  +A AL+NK + 
Sbjct: 255  HFLLRVLQDEEAWQLFEKKAGE-VKDPTLHPIATQIARKCAGLPVLIVAVATALKNKELC 313

Query: 181  QWKTTLQQLRMPSLVNFGGVPAEA-YLTIELSYNYLEGEKLKNIFLLCS-LMGNEIATSD 238
            +W+  L+ L       F     EA Y  ++LSYN+L  E+ K++F+LC  L  + I  SD
Sbjct: 314  EWRDALEDLN-----KFDKEGYEASYTALKLSYNFLGAEE-KSLFVLCGQLKAHYIVVSD 367

Query: 239  LFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIA 298
            L KY + LG+F    T++ AR     +++ L+   LLL GD+++++ MHDVV   A  +A
Sbjct: 368  LLKYSLGLGLFNQRTTVKAARNRLLKVVNDLKRSCLLLEGDDDDEVRMHDVVHNFATLVA 427

Query: 299  CRDQNALVVR-NEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSS 357
             RD +   V  +  + EWP++D L +  AIS+ D  I +L E  ECP L+   + +  SS
Sbjct: 428  SRDHHVFAVACDSGLEEWPEKDILEQFTAISLPDCKIPKLPEVFECPDLQSFLLYNKDSS 487

Query: 358  VEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKN 417
            ++I  P+ FF+ MKKLK++D   +    +P S+  L NLQTLCLD+C L D+A IG+LK 
Sbjct: 488  LKI--PDNFFSRMKKLKLMDLSNVHLSPMPLSLQCLENLQTLCLDRCTLEDIAAIGELKK 545

Query: 418  LEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVE 477
            L++LSF GS +V+LP E+G+LT+L+ LDLS C KL+VI   V+S L +LEELYM N FV+
Sbjct: 546  LQVLSFIGSTMVQLPREVGKLTRLQLLDLSRCQKLEVIPKGVLSCLTKLEELYMGNSFVQ 605

Query: 478  WEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLP 537
            WE E  + +  N+ LDEL  LP L TLE+H+ N  ILP   F+ KL+ +K+ +GE     
Sbjct: 606  WESEEHDGDRNNASLDELKLLPNLVTLELHIINAEILPRDVFSEKLDLYKVFIGE----- 660

Query: 538  FGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIK 597
                         W  F     E  RTLKLKLNS+    K    +   E L LD+L+G++
Sbjct: 661  ------------EWSWF--GKYEASRTLKLKLNSSIEIEKVKVLLMTTEDLYLDELEGVR 706

Query: 598  NVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQ 657
            NVL+ELD +GF QLKHLH+QN+ +   IVD +     + AFP LESL + NL  L +IC 
Sbjct: 707  NVLYELDGQGFPQLKHLHIQNSSEIQYIVDCLSMGNHYIAFPRLESLLVDNLNNLGQICY 766

Query: 658  DRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVV 717
             +L   SF++L+ ++VEHC  L N+F  S  + L +LE I V +C  ++EI      D  
Sbjct: 767  GQLMSGSFSKLRKLKVEHCNALKNLFYFSMFRGLVQLEEIDVSSCNIMEEIVVEEIEDDS 826

Query: 718  IDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLL 777
               + I+  +LRTL L  LP   SFC   ++ ++  GL   C   IS      +T S L 
Sbjct: 827  GRDEIIKPIRLRTLTLEYLPRFTSFCS--QRMQKLAGLDAGCAQIIS------ETPSVLF 878

Query: 778  NEKVVFPSLEALDLRQI-NVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLR 836
             +K+ F +L  L L  I N+EKIW +Q+        QNLT LI+  C KL Y+F++SM+ 
Sbjct: 879  GQKIEFSNLLNLKLSSINNMEKIWRNQVKEPP-SSVQNLTSLIVEGCGKLSYLFTSSMVE 937

Query: 837  SFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSE 896
            +   L++LEI+ C  ++EII   G          FP L TL+L  LP L     G +  E
Sbjct: 938  NLSQLEYLEISDCSFMEEIIVAEGLTKH-NSKLHFPILHTLKLKSLPNLIRFCFG-NLIE 995

Query: 897  WPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGL-NG 955
             P+L  L +  C ++  F S         E N+       +LF  +  FP LE+L +   
Sbjct: 996  CPSLNALRIENCPRLLKFISS--SASTNMEANRGGRETNSTLFDEKVSFPILEKLEIVYM 1053

Query: 956  KDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGC------- 1008
             ++RMIW        F  LK++++ +       FP  +L     LE + +  C       
Sbjct: 1054 NNLRMIWESEDRGDSFCKLKIVKIQNCKELVTIFPSKMLRALQKLEDVVVTNCDLLEEVF 1113

Query: 1009 SCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDS 1068
            + +E+++ +G  ++    +AQ++ L +  L  L  +W  D                    
Sbjct: 1114 NLQELMATEGKQNRVLPVVAQLRDLTIENLPSLKHVWSGD-------------------- 1153

Query: 1069 LLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEG 1128
                 P    SF NL SL   +C  L NL  +S AKSL  L  + +  C     V K   
Sbjct: 1154 -----PQGVFSFDNLRSLSAENCPSLKNLFPASIAKSLSQLEDLSIVNCGLQEIVAKDRV 1208

Query: 1129 NQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFT 1182
               A    VF +LK + L  L+ + +F  G +I   P LE L +  C  + +FT
Sbjct: 1209 E--ATPRFVFPQLKSMKLWILEEVKNFYPGRHILDCPKLEKLTIHDCDNLELFT 1260

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224083434|ref|XP_002307025.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222856474|gb|EEE94021.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  679 bits (1751), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 402/924 (43%), Positives = 567/924 (61%), Gaps = 43/924 (4%)

Query: 6    KTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLH 65
            KTTLVKE AR+A ++KLF++VVF+ ++QT DIKKIQ  IA++L L   EE+E  RA RL 
Sbjct: 189  KTTLVKEAARQAIQEKLFNQVVFATITQTQDIKKIQGQIADQLSLKFDEESECGRAGRLR 248

Query: 66   EQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLF-SMGSEKNFLV 124
            ++LK+E+KILIILD++WK +DLE VGIP  D+H GCK+L+T+R+  VL   M  +KNF +
Sbjct: 249  QRLKQEQKILIILDDLWKSLDLEAVGIPLKDEHEGCKMLVTSREFDVLSCGMDIQKNFPI 308

Query: 125  DILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKT 184
            + L EEE W LFK MAGD VE+ +L+S A EVAK C GLP+A+ T+ARAL+NK++ QWK 
Sbjct: 309  NALSEEETWELFKKMAGDHVEHPDLQSLAIEVAKMCAGLPVAIVTVARALKNKNLSQWKN 368

Query: 185  TLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDLFKYCM 244
             L++L+ PS  NF GV  + Y  IELSYN+LE ++LK+ FLLCS MG   +T DL KY M
Sbjct: 369  ALRELKRPSPRNFAGVQEDVYAAIELSYNHLESKELKSTFLLCSRMGYNASTRDLLKYGM 428

Query: 245  CLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNA 304
             LG+F G  T+E A+   ++L+H+L+   LLL   ++ + SMHD VR VAISIA RD + 
Sbjct: 429  GLGLFSGFVTVEEAQDRVHSLVHKLKASGLLLENHSDWQFSMHDAVRDVAISIAFRDCHV 488

Query: 305  LVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPE 364
             V  +E   +W  ++ L+K   I +  SS  ELL  +E PQL+FL++ S   S+EI+   
Sbjct: 489  FVGGDEVEPKWSAKNMLKKYKEIWL--SSNIELLREMEYPQLKFLHVRSEDPSLEIS--S 544

Query: 365  KFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFS 424
                GM KLKV+    +   SLP  +  L NL+TLCL Q  LG++A IG+LK LEILSF+
Sbjct: 545  NICRGMHKLKVLVLTNISLVSLPSPLHFLKNLRTLCLHQSSLGEIADIGELKKLEILSFA 604

Query: 425  GSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPN 484
             S I  LP ++GQLTKLR LDLS+CF+L VI PN+ S+L  LEEL M N F  W  EG +
Sbjct: 605  KSNIKHLPRQIGQLTKLRMLDLSDCFELDVIPPNIFSNLSMLEELCMGNSFHHWATEGED 664

Query: 485  SETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSND 544
                N+ L EL HLP LT +++HV + +++ +G  +++LERF+I +G+            
Sbjct: 665  ----NASLVELDHLPHLTNVDIHVLDSHVMSKGMLSKRLERFRIFIGDV----------- 709

Query: 545  ACFRLSWPLFMINDSETLRTLKLKLNSTT--ISSKKLEGIKNVEYLCLDKLQGIKNVLFE 602
                  W    +  S  LRTLKLKLN++   +    L  +K  + L L +L+G+ NV+ E
Sbjct: 710  ------WDWDGVYQS--LRTLKLKLNTSASNLEHGVLMLLKRTQDLYLLELKGVNNVVSE 761

Query: 603  LDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSV 662
            LDTEGF QL+HLH+ N+ D   I+++    P H  FP+LESL LYNL+ LE++C   L+ 
Sbjct: 762  LDTEGFLQLRHLHLHNSSDIQYIINTSSEFPSH-VFPVLESLFLYNLVSLEKLCHGILTA 820

Query: 663  QSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGG---DVVID 719
            +SF +L  I V +C +L ++F  S A+ L +L+TI +  C  ++E+ A  G    D   +
Sbjct: 821  ESFRKLTIIEVGNCVKLKHLFPFSVARGLSQLQTINISFCLTMEEVVAEEGDEFEDSCTE 880

Query: 720  HQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSP---- 775
               +EF QL +L L  LP L++FC   + +R  Q         +     ++    P    
Sbjct: 881  IDVMEFNQLSSLSLQCLPHLKNFCSREKTSRLCQAQLNPVATSVGLQSKEISEDEPRNPL 940

Query: 776  -LLNEKVVFPSLEALDLRQINVEKIWHDQLSAA-MFPCFQNLTRLILWICPKLKYVFSAS 833
             L  EK++ P L+ L+L  INVEKIWH QL     FP  QNL  L +  C  LKY+FS S
Sbjct: 941  QLFCEKILIPKLKKLELVSINVEKIWHGQLHRENTFP-VQNLQTLYVDDCHSLKYLFSPS 999

Query: 834  MLRSFEHLQHLEIACCERLQEIISKGGTDD-QVTPNFVFPGLTTLRLIGLPKLKSLYPGM 892
            M++S   L++L +  C+ ++EIIS  G ++ ++     F  L  + L  LP+L     G 
Sbjct: 1000 MVKSLVQLKYLTVRNCKSMEEIISVEGVEEGEMMSEMCFDKLEDVELSDLPRLTWFCAG- 1058

Query: 893  HTSEWPALKVLNVLACDQVTVFAS 916
               +   LK L +  C +   F S
Sbjct: 1059 SLIKCKVLKQLYICYCPEFKTFIS 1082

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488095|ref|XP_002270726.2| PREDICTED: probable disease resistance protein At4g27220-like [Vitis vinifera]

 Score =  650 bits (1677), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 439/1221 (35%), Positives = 664/1221 (54%), Gaps = 136/1221 (11%)

Query: 1    MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSR 60
            +GG+GK+TLVK+VA +A ++KLF +VV   V QT D K IQQ IA+KLG+  +E +E  R
Sbjct: 178  LGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVFQTPDFKGIQQQIADKLGMKFEEVSEQGR 237

Query: 61   ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFS-MGSE 119
            A RLH+++K+E  ILIILD++W  ++LE VGIP  DDH+GCKL+LT+R++ VL + M ++
Sbjct: 238  ADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMSTQ 297

Query: 120  KNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSM 179
            K+F V  L+E+E W LFK  AGD ++N EL+  A +VAK C GLPIA+ T+A+AL+NK++
Sbjct: 298  KDFRVQHLQEDETWILFKNTAGDSIKNPELQPIAVDVAKECAGLPIAIVTVAKALKNKNV 357

Query: 180  PQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDL 239
              WK  LQQL+  +  N  G+  + Y +++LSY +LEG+++K++ LLC L  ++I   DL
Sbjct: 358  SIWKDALQQLKSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLCLLCGLFSSDIHIGDL 417

Query: 240  FKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIAC 299
             KY + L +F+G +T+E A+     L+  L+    LL  D+N  + MHD+VR+ A  IA 
Sbjct: 418  LKYGVGLRLFQGTNTLEEAKNRIDTLVDNLKSSNFLLETDHNAYVRMHDLVRSTARKIAS 477

Query: 300  RDQNALVVRNE--EVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFL--YMDSNG 355
              ++    +     V EW   D L+  + + + D  IHEL EGL CP+LEF   ++ ++ 
Sbjct: 478  EQRHVFTHQKTTVRVEEWSRIDELQVTW-VKLHDCDIHELPEGLVCPKLEFFECFLKTHS 536

Query: 356  SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKL 415
            +   + +P  FF GMK+LKV+DF RMQ  SLP SI  L NL+TLCLD C LGD+ II +L
Sbjct: 537  A---VKIPNTFFEGMKQLKVLDFSRMQLPSLPLSIQCLANLRTLCLDGCKLGDIVIIAEL 593

Query: 416  KNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF 475
            K LEILS   S + +LP E+ QLT LR LDLS+   +KVI   VISSL RLE+L M N F
Sbjct: 594  KKLEILSLMSSDMEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLFRLEDLCMENSF 653

Query: 476  VEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAF 535
             +WE EG +    N+ L EL HL  LT L++ + +  +LP+      L R++I VG+   
Sbjct: 654  TQWEGEGKS----NACLAELKHLSHLTFLDIQIPDAKLLPKDIVFENLVRYRILVGDV-- 707

Query: 536  LPFGATSNDACFRLSWP-LFMINDSETLRTLKLKLNSTTISSKKLEGI----KNVEYLCL 590
                          SW  +F  N +       LKLN    S   ++GI    K  E L L
Sbjct: 708  -------------WSWEEIFEANST-------LKLNKFDTSLHLVDGISKLLKRTEDLHL 747

Query: 591  DKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLM 650
             +L G  NVL +L+ EGF +LKHL+V+++P+   IV+SM+    H AFP++E+L+L  L+
Sbjct: 748  RELCGGTNVLSKLNREGFLKLKHLNVESSPEIQYIVNSMDLTSSHGAFPVMETLSLNQLI 807

Query: 651  KLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFA 710
             L+ +C  +    S   L+ + VE C  L  +F LS A+ L RLE   V  C+++ E+ +
Sbjct: 808  NLQEVCHGQFPAGSLGCLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCKSMVEMVS 867

Query: 711  VGGGDVVIDHQKIE-FGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDK 769
             G  ++  D   +  F +LR L L +LP L +FC E                        
Sbjct: 868  QGRKEIKEDAVNVPLFPELRYLTLEDLPKLSNFCFE------------------------ 903

Query: 770  LDTSSPLLNE---KVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKL 826
                +P+L++    +V PS   L     N  +I   QL   +     NL  L L  C  L
Sbjct: 904  ---ENPVLSKPASTIVGPSTPPL-----NQPEIRDGQL---LLSLGGNLRSLKLKNCMSL 952

Query: 827  KYVFSASMLRSFEHLQHLEIACCERLQEI--ISKGGTDDQVTPNFVFPGLTTLRLIGLPK 884
              +F  S+L   ++L+ L +  C +L+ +  + +   DD      + P L  LRL GLPK
Sbjct: 953  LKLFPPSLL---QNLEELIVENCGQLEHVFDLEELNVDDGHVE--LLPKLKELRLSGLPK 1007

Query: 885  LKSL---------YPGMHTSE------WPALKVLNVLACDQVTVFASELFHFCKISEENK 929
            L+ +         +P    S       +P L  + + +   +T F S  +H  +      
Sbjct: 1008 LRHICNCGSSRNHFPSSMASAPVGNIIFPKLSDIKLESLPNLTSFVSPGYHSLQRLHHAD 1067

Query: 930  LDTPARQSLFFLEKV-FPNLEELGLNGKD-IRMIWHGNFPQHLFGSLKVLRLADDHVSAA 987
            LDTP    + F E+V FP+L+ L ++G D ++ IWH   PQ  F  L+V+++A       
Sbjct: 1068 LDTPF--PVLFDERVAFPSLKFLIISGLDNVKKIWHNQIPQDSFSKLEVVKVASCGELLN 1125

Query: 988  GFPLGLLERFNNLEKLRLDGCSC-KEILSNDG---HLD-KHGGKLAQIKSLRLVRLNDLN 1042
             FP  +L+R  +L  + +  CS  +E+   +G   +++ K G  + Q+  L L  L  + 
Sbjct: 1126 IFPSCVLKRSQSLRLMEVVDCSLLEEVFDVEGTNVNVNVKEGVTVTQLSQLILRLLPKVE 1185

Query: 1043 QLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSA 1102
            ++W +D                         P   ++F NL S+ +  C+ L NL  +S 
Sbjct: 1186 KIWNKD-------------------------PHGILNFQNLKSIFIDKCQSLKNLFPASL 1220

Query: 1103 AKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIF 1162
             K LV L K+++  C  + ++V  +       + VF K+  L LV+L  L SF  G +  
Sbjct: 1221 VKDLVQLEKLELRSC-GIEEIVAKDNEAETAAKFVFPKVTSLILVNLHQLRSFYPGAHTS 1279

Query: 1163 KFPSLEYLFVVGCPKMNIFTT 1183
            ++P L+ L V  C K+N+F +
Sbjct: 1280 QWPLLKELIVRACDKVNVFAS 1300

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147865073|emb|CAN83232.1| hypothetical protein VITISV_021876 [Vitis vinifera]

 Score =  649 bits (1674), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 440/1219 (36%), Positives = 663/1219 (54%), Gaps = 130/1219 (10%)

Query: 1    MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSR 60
            MGG+GK+TLVK+VA +A ++KLF +VV   V QT D K IQQ IA+KLG+  +E +E  R
Sbjct: 178  MGGVGKSTLVKQVAEQAEQEKLFRKVVMVPVIQTPDFKGIQQQIADKLGMKFEEVSEQGR 237

Query: 61   ASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFS-MGSE 119
            A RLH+++K+E  ILIILD++W  ++LE VGIP  DDH+GCKL+LT+R++ VL + M ++
Sbjct: 238  ADRLHQRIKQENTILIILDDLWAELELEKVGIPSPDDHKGCKLVLTSRNKQVLSNEMSTQ 297

Query: 120  KNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSM 179
            K+F V  L+E+E W LFK  AGD +EN EL+  A +VAK C GLPIA+ T+A+AL+NK++
Sbjct: 298  KDFRVQHLQEDETWILFKNTAGDSIENPELQPIAVDVAKECAGLPIAIVTVAKALKNKNV 357

Query: 180  PQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNEIATSDL 239
              WK  LQQL   +  N  G+  + Y +++LSY +LEG+++K++FLLC L  N I   DL
Sbjct: 358  SIWKDALQQLNSQTSTNITGMETKVYSSLKLSYEHLEGDEVKSLFLLCGLFSNYIYIRDL 417

Query: 240  FKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIAC 299
             KY M L +F+G +T+E A+     L+  L+   LLL   +N  + MHDVVR+VA+ I+ 
Sbjct: 418  LKYGMGLRLFQGTNTLEEAKNRIDTLVDNLKSSNLLLETGHNAVVRMHDVVRSVALDISS 477

Query: 300  RDQNALVVRNE--EVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSS 357
            +D +   ++     V +WP  D L+K   ++  +  IHEL EGL CP+L+ L++    ++
Sbjct: 478  KDHHVFTLQQTTGRVEKWPRIDELQKVIWVNQDECDIHELPEGLVCPKLK-LFICCLKTN 536

Query: 358  VEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKN 417
              + +P  FF GMK+L+V+DF +M   SLP S+  L NLQTL L  C LGD+ II +LK 
Sbjct: 537  SAVKIPNTFFEGMKQLQVLDFTQMHLPSLPSSLQCLANLQTLLLYGCKLGDIGIITELKK 596

Query: 418  LEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVE 477
            LEILS   S I +LP E+ QLT LR LDLS+   +KVI   VISSL +LE+L M N F +
Sbjct: 597  LEILSLIDSDIEQLPREIAQLTHLRLLDLSDSSTIKVIPSGVISSLSQLEDLCMENSFTQ 656

Query: 478  WEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLP 537
            WE EG +    N+ L EL HL  LT+L++ + +  +LP+      L R++I VG+     
Sbjct: 657  WEGEGKS----NACLAELKHLSHLTSLDIQIPDAKLLPKDVVFENLVRYRIFVGDVWI-- 710

Query: 538  FGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI----KNVEYLCLDKL 593
                         W      + +T RTLKLK   T++    ++GI    K  E L L +L
Sbjct: 711  -------------WE----ENYKTNRTLKLKKFDTSL--HLVDGISKLLKITEDLHLREL 751

Query: 594  QGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLE 653
             G  NVL +LD EGF +LKHL+V+++P+   IV+S++    H AFP++E+L+L  L+ L+
Sbjct: 752  CGGTNVLSKLDGEGFFKLKHLNVESSPEIQYIVNSLDLTSPHGAFPVMETLSLNQLINLQ 811

Query: 654  RICQDRLSV-----QSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEI 708
             +C  +  V     QSF  L+ + VE C  L  +F LS A+ L +LE I V  C+++ E+
Sbjct: 812  EVCHGQFPVESSRKQSFGCLRKVEVEDCDGLKFLFSLSVARGLSQLEEIKVTRCKSMVEM 871

Query: 709  FAVGGGDVVIDHQKIE-FGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLK 767
             +    ++  D   +  F +LR L L +LP L +FC E                      
Sbjct: 872  VSQERKEIREDADNVPLFPELRHLTLEDLPKLSNFCFE---------------------- 909

Query: 768  DKLDTSSPLLNE---KVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICP 824
                  +P+L +    +V PS   L     N  +I   QL   +     NL  L L  C 
Sbjct: 910  -----ENPVLPKPASTIVGPSTPPL-----NQPEIRDGQL---LLSFGGNLRSLKLKNCM 956

Query: 825  KLKYVFSASMLRSFEHLQHLEIACCERLQEI--ISKGGTDDQVTPNFVFPGLTTLRLIGL 882
             L  +F  S+L   ++L+ L +  C +L+ +  + +   DD      + P L  LRLIGL
Sbjct: 957  SLLKLFPPSLL---QNLEELIVENCGQLEHVFDLEELNVDDGHVE--LLPKLKELRLIGL 1011

Query: 883  PKLKSL---------YPGMHTSE------WPALKVLNVLACDQVTVFASELFHFCKISEE 927
            PKL+ +         +P    S       +P L  + + +   +T F S  +H  +    
Sbjct: 1012 PKLRHICNCGSSRNHFPSSMASAPVGNIIFPKLSDITLESLPNLTSFVSPGYHSLQRLHH 1071

Query: 928  NKLDTPARQSLFFLEKV-FPNLEELGLNGKD-IRMIWHGNFPQHLFGSLKVLRLADDHVS 985
              LDTP    + F E+V FP+L+ L ++G D ++ IWH   PQ  F  L+V+++A     
Sbjct: 1072 ADLDTPF--PVLFNERVAFPSLKFLIISGLDNVKKIWHNQIPQDSFSKLEVVKVASCGEL 1129

Query: 986  AAGFPLGLLERFNNLEKLRLDGCS-CKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQL 1044
               FP  +L+R  +L  + +  CS  +E+   +G     G  +  +  L L  L  + ++
Sbjct: 1130 LNIFPSCVLKRSQSLRLMEVVDCSLLEEVFDVEGTNVNEGVTVTHLSRLILRLLPKVEKI 1189

Query: 1045 WKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAK 1104
            W +D                         P   ++F NL S+ +  C+ L NL  +S  K
Sbjct: 1190 WNKD-------------------------PHGILNFQNLKSIFIDKCQSLKNLFPASLVK 1224

Query: 1105 SLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKF 1164
             LV L K+++  C  + ++V  +       + VF K+  L L  L  L SF  G +  ++
Sbjct: 1225 DLVQLEKLKLRSC-GIEEIVAKDNEAETAAKFVFPKVTSLKLFHLHQLRSFYPGAHTSQW 1283

Query: 1165 PSLEYLFVVGCPKMNIFTT 1183
            P L+ L V  C K+N+F +
Sbjct: 1284 PLLKELIVRACDKVNVFAS 1302

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

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	1247
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.568	0.719	0.294	3.9e-69
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.586	0.795	0.275	1.3e-59
TAIR|locus:2197739	762	AT1G61300 [Arabidopsis thalian	0.368	0.602	0.323	5.9e-54
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.353	0.498	0.306	1.6e-51
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.366	0.508	0.331	1.4e-50
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.372	0.524	0.300	5.8e-50
TAIR|locus:2008510	967	AT1G61190 "AT1G61190" [Arabido	0.350	0.451	0.327	1.5e-49
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.364	0.511	0.313	2.6e-48
TAIR|locus:2170892	848	AT5G43730 [Arabidopsis thalian	0.376	0.553	0.298	8.2e-43
TAIR|locus:2005517	909	RPS2 "RESISTANT TO P. SYRINGAE	0.524	0.719	0.260	1.6e-42

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 710 (255.0 bits), Expect = 3.9e-69, Sum P(2) = 3.9e-69
 Identities = 227/770 (29%), Positives = 383/770 (49%)

Query:     1 MGGIGKTTLVKEVARKARKD---KLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ-EET 56
             MGG+GKTTLV+ +  K R++   + F  V+F  VS+  D +++Q+ IAE+L +  Q EE+
Sbjct:   172 MGGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEES 231

Query:    57 ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
             E   A R++  L +E K L+ILD++WK +DL+ +GIP  ++++G K++LT+R   V  SM
Sbjct:   232 EEKLARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRSM 291

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRN 176
              ++ +  VD L EE+AW LF   AGD V +  ++  A  V++ C GLP+A+ T+  A+R 
Sbjct:   292 KTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRG 351

Query:   177 K-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE-- 233
             K ++  W   L +L   S+     +  + +  ++LSY++LE +K K  FLLC+L   +  
Sbjct:   352 KKNVKLWNHVLSKLSK-SVPWIKSIEEKIFQPLKLSYDFLE-DKAKFCFLLCALFPEDYS 409

Query:   234 IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAV 293
             I  +++ +Y M  G  + + + E++       +  L+D  LL  GD  + + MHDVVR  
Sbjct:   410 IEVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDF 469

Query:   294 AISIACR---DQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLE--CPQLEF 348
             AI I      D ++LV+    + +   +        +S+ ++ +  L + +E  C +   
Sbjct:   470 AIWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSV 529

Query:   349 LYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCI-L 406
             L +  N    E  VP  F      L++++    +  S P  S+  L +L +L L  C  L
Sbjct:   530 LLLQGNFLLKE--VPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKL 587

Query:   407 GDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRL 466
               +  +  L  LE+L   G+ I++ P  L +L + RHLDLS    L+ I   V+S L  L
Sbjct:   588 VKLPSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSL 647

Query:   467 EELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNIL--PEGFFARKLE 524
             E L M++    W  +G   +   + ++E+  L RL  L + + +   L      + ++L+
Sbjct:   648 ETLDMTSSHYRWSVQGETQKG-QATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLK 706

Query:   525 RFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKN 584
             +F++ VG    L    T +D   RL+  +  +N S+   ++   L  TT           
Sbjct:   707 KFQLVVGSRYIL---RTRHDKR-RLT--ISHLNVSQV--SIGWLLAYTTS---------- 748

Query:   585 VEYLCLDKLQGIKNVLFEL--DTEGFSQLKHLHVQN-----NP--DFMCIVDSMERVPLH 635
                L L+  QGI+ ++ +L  D +GF  LK L ++N     N   + +    S +   + 
Sbjct:   749 ---LALNHCQGIEAMMKKLVSDNKGFKNLKSLTIENVIINTNSWVEMVSTNTSKQSSDIL 805

Query:   636 DAFPLLESLNLYNLMKLERIC--QDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPR 693
             D  P LE L+L  +  LE     Q  L ++    LK I +  C +L  +        +P 
Sbjct:   806 DLLPNLEELHLRRV-DLETFSELQTHLGLK-LETLKIIEITMCRKLRTLLDKRNFLTIPN 863

Query:   694 LETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFC 743
             LE I +  C ++Q +      + ++ HQ      LR L L NLP L S C
Sbjct:   864 LEEIEISYCDSLQNLH-----EALLYHQPF-VPNLRVLKLRNLPNLVSIC 907

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 637 (229.3 bits), Expect = 1.3e-59, P = 1.3e-59
 Identities = 214/776 (27%), Positives = 373/776 (48%)

Query:     1 MGGIGKTTLVKEVARKARK---DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETE 57
             MGG+GKTTLV+ +     K    + F  V++  VS+  D+K++Q  IA++LG     E  
Sbjct:   142 MGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQM 201

Query:    58 SSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFG-DDHRGCKLLLTARDRTVLFSM 116
             +     + E+L   +  L+ILD++W  +DL+ +GIP   +  +  K++LT+R   V   M
Sbjct:   202 NQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPLALERSKDSKVVLTSRRLEVCQQM 261

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRN 176
              + +N  V  L+E+EAW LF    G+   +  +K  A +V+  C GLP+A+ TI R LR 
Sbjct:   262 MTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRG 321

Query:   177 KSMPQ-WKTTLQQLRM--PSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE 233
             K   + WK TL  L+   PS+        + + T++LSY++L+ + +K+ FL C+L   +
Sbjct:   322 KPQVEVWKHTLNLLKRSAPSI----DTEEKIFGTLKLSYDFLQ-DNMKSCFLFCALFPED 376

Query:   234 --IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVR 291
               I  S+L  Y +  G+  G    E+       L+ +L+D  LL  GD+ + + MHDVVR
Sbjct:   377 YSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLKDSCLLEDGDSCDTVKMHDVVR 436

Query:   292 AVAI-SIACRDQ--NALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEF 348
               AI  ++ + +  ++LV+    + E+P +  +     +S+  + +  L   +    +E 
Sbjct:   437 DFAIWFMSSQGEGFHSLVMAGRGLIEFPQDKFVSSVQRVSLMANKLERLPNNV-IEGVET 495

Query:   349 LYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCI-LG 407
             L +   G+S    VP  F      L+++D   ++  +LP S  +L +L++L L  C  L 
Sbjct:   496 LVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLR 555

Query:   408 DVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLE 467
             ++  +  L  L+ L    S I +LP  L  L+ LR++ +SN ++L+ I    I  L  LE
Sbjct:   556 NLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLE 615

Query:   468 ELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFK 527
              L M+     W  +G   E   + LDE+  LP L  L + + +  +L   +    L + +
Sbjct:   616 VLDMAGSAYSWGIKGEEREG-QATLDEVTCLPHLQFLAIKLLD--VLSFSYEFDSLTK-R 671

Query:   528 ISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEY 587
             ++  +  F P  + S             I+D        + +++ +I    L+ + +++ 
Sbjct:   672 LTKFQFLFSPIRSVSPPGTGE---GCLAISD--------VNVSNASIGWL-LQHVTSLDL 719

Query:   588 LCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNL- 646
                + L G+   L       F  +K L +   P  + +    E   L D FP LE L+L 
Sbjct:   720 NYCEGLNGMFENLVTKSKSSFVAMKALSIHYFPS-LSLASGCES-QL-DLFPNLEELSLD 776

Query:   647 -YNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSA-AKCLPRLETIAVINCRN 704
               NL  +  +    L ++   +LK ++V  C QL  +F     A  LP L+ I V++C  
Sbjct:   777 NVNLESIGEL-NGFLGMR-LQKLKLLQVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLR 834

Query:   705 IQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQ-ETC 759
             ++E+F      V    + +   +L  + L  LP LRS C +       + L+ E+C
Sbjct:   835 LEELFNFSSVPVDFCAESL-LPKLTVIKLKYLPQLRSLCNDRVVLESLEHLEVESC 889

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2197739 AT1G61300 [Arabidopsis thaliana (taxid:3702)]

 Score = 530 (191.6 bits), Expect = 5.9e-54, Sum P(2) = 5.9e-54
 Identities = 157/486 (32%), Positives = 252/486 (51%)

Query:     1 MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
             MGG+GKTTL K++  K A+    FD V++  VS+   + K+Q+ IAEKL L   + + + 
Sbjct:    69 MGGVGKTTLFKKIHNKFAKMSSRFDIVIWIVVSKGAKLSKLQEDIAEKLHLCDDLWKNKN 128

Query:    57 ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
             ES +A+ +H  LK + + +++LD+IW++VDLE +G+P+  +   CK+  T RD+ V   M
Sbjct:   129 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGVPYPSEVNKCKVAFTTRDQKVCGEM 187

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
             G  K   V  L+ E+AW LFK   GD+    +  +   A EVA+ C+GLP+AL+ I   +
Sbjct:   188 GDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVELAREVAQKCRGLPLALSVIGETM 247

Query:   175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
              +K+M Q W+  +  L   S   F  +  +    ++ SY+ L  E +K+ FL C+L    
Sbjct:   248 ASKTMVQEWEHAIDVLTR-SAAEFSNMGNKILPILKYSYDSLGDEHIKSCFLYCALFPED 306

Query:   232 NEIATSDLFKYCMCLGIFKGVD-TMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVV 290
             +EI    L  Y +C G F G D  ++ AR   Y ++  L    LL      E + MHDVV
Sbjct:   307 DEIYNEKLIDYWICEG-FIGEDQVIKRARNKGYEMLGTLTLANLLTKV-GTEHVVMHDVV 364

Query:   291 RAVAISIAC----RDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL 346
             R +A+ IA     + +N +V     + E P+         +S+ D+ I E+    +C +L
Sbjct:   365 REMALWIASDFGKQKENFVVRARVGLHERPEAKDWGAVRRMSLMDNHIEEITCESKCSEL 424

Query:   347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFC-RMQFFSLPPSIDHLLNLQTLCLDQCI 405
               L++ SN      N+  +F   M+KL V+D      F  LP  I  L++LQ L L    
Sbjct:   425 TTLFLQSNQLK---NLSGEFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTS 481

Query:   406 LGDVAI-IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAP-NVISSL 463
             +  + + + KLK L  L+ + +  V+L    G +++L  L L      KV    +V+  L
Sbjct:   482 IKQLPVGLKKLKKLTFLNLAYT--VRLCSISG-ISRLLSLRLLRLLGSKVHGDASVLKEL 538

Query:   464 IRLEEL 469
              +L+ L
Sbjct:   539 QKLQNL 544

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

GO:0043531 "ADP binding" evidence=IEA

GO:0005829 "cytosol" evidence=IDA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 505 (182.8 bits), Expect = 1.6e-51, Sum P(2) = 1.6e-51
 Identities = 149/486 (30%), Positives = 245/486 (50%)

Query:     1 MGGIGKTTLVKEVARKARK-DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV---LQEET 56
             MGG+GKTTL+ ++  K  K    FD V++  VS+   + KIQ++I EKLGLV     E+ 
Sbjct:   184 MGGVGKTTLLTQINNKFSKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKN 243

Query:    57 ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
             ++ RA  +H  L+R+ K +++LD+IW++V+L+ +G+P+     GCK+  T   + V   M
Sbjct:   244 KNQRALDIHNVLRRK-KFVLLLDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRM 302

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTATEVAKACKGLPIALTTIARAL 174
             G +    +  L    AW L K   G++    + ++   A +V++ C GLP+AL  I   +
Sbjct:   303 GVDNPMEISCLDTGNAWDLLKKKVGENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETM 362

Query:   175 RNK-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGN- 232
               K ++ +W+   + L   S  +F G+  E    ++ SY+ L GE  K+ FL CSL    
Sbjct:   363 SFKRTIQEWRHATEVLT--SATDFSGMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPED 420

Query:   233 -EIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQL-RDCFLLLGGDNNEKLSMHDVV 290
              EI    L +Y +C G  K     E A    Y ++  L R   LL G  + + +SMHD+V
Sbjct:   421 FEIRKEMLIEYWICEGFIKEKQGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMV 480

Query:   291 RAVAI----SIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL 346
             R +A+     +    +  +V     + E P+ +  R    +S+ +++  ++L   EC +L
Sbjct:   481 REMALWIFSDLGKHKERCIVQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVEL 540

Query:   347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-LPPSIDHLLNLQTLCLDQCI 405
               L++ +N   V+I++  +FF  M  L V+D       S LP  I  L++LQ L L    
Sbjct:   541 ITLFLQNNYKLVDISM--EFFRCMPSLAVLDLSENHSLSELPEEISELVSLQYLDL---- 594

Query:   406 LGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAP-NVISSL- 463
                               SG+ I +LP  L +L KL HL L    +L+ I+  + +SSL 
Sbjct:   595 ------------------SGTYIERLPHGLHELRKLVHLKLERTRRLESISGISYLSSLR 636

Query:   464 -IRLEE 468
              +RL +
Sbjct:   637 TLRLRD 642

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 524 (189.5 bits), Expect = 1.4e-50, Sum P(2) = 1.4e-50
 Identities = 162/488 (33%), Positives = 252/488 (51%)

Query:     1 MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
             MGG+GKTTL K++  K A     FD V++  VS+ + I K+Q+ IAEKL L   + + + 
Sbjct:   180 MGGVGKTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKN 239

Query:    57 ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
             ES +A+ +H  LK + + +++LD+IW++VDLE +GIP+  +   CK+  T R R V   M
Sbjct:   240 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEM 298

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
             G  K   V+ L+ E+AW LFK   GD+  + +  +   A EVA+ C+GLP+AL  I   +
Sbjct:   299 GDHKPMQVNCLEPEDAWELFKNKVGDNTLSSDPVIVELAREVAQKCRGLPLALNVIGETM 358

Query:   175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
              +K+M Q W+  +      S   F  +  +    ++ SY+ L  E +K+ FL C+L    
Sbjct:   359 SSKTMVQEWEHAIHVFNT-SAAEFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPED 417

Query:   232 NEIATSDLFKYCMCLGIFKGVD-TMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVV 290
              EI    L  Y +C G F G D  ++ AR   YA++  L    LL        + MHDVV
Sbjct:   418 GEIYNEKLIDYWICEG-FIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTYYCV-MHDVV 475

Query:   291 RAVAISIAC----RDQNALVVRNEEVWEWP---DEDALRKCYAISIRDSSIHELLEGLEC 343
             R +A+ IA     + +N +V     + E P   D  A+RK   +S+ D+ I E+    +C
Sbjct:   476 REMALWIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRK---MSLMDNDIEEITCESKC 532

Query:   344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFC-RMQFFSLPPSIDHLLNLQTLCLD 402
              +L  L++ SN      N+P  F   M+KL V+D      F  LP  I  L++LQ L L 
Sbjct:   533 SELTTLFLQSNKLK---NLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLS 589

Query:   403 QCILGDVAI-IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
                +  + I + +LK L  L  + +  +     + +L  LR L L    K+   A +V+ 
Sbjct:   590 NTSIEHMPIGLKELKKLTFLDLTYTDRLCSISGISRLLSLRLLRLLGS-KVHGDA-SVLK 647

Query:   462 SLIRLEEL 469
              L +L+ L
Sbjct:   648 ELQQLQNL 655

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 493 (178.6 bits), Expect = 5.8e-50, Sum P(2) = 5.8e-50
 Identities = 146/486 (30%), Positives = 237/486 (48%)

Query:     1 MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESS 59
             MGG+GKTTL+ ++  +    D   + V++  VS  + I KIQ+ I EK+G +  E  + S
Sbjct:   183 MGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKS 242

Query:    60 RASRLHEQLK--REEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMG 117
                +  + L    +++ +++LD+IWKRV+L  +GIP      GCK+  T R ++V  SMG
Sbjct:   243 ENQKAVDILNFLSKKRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMG 302

Query:   118 SEKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTATEVAKACKGLPIALTTIARALR 175
                   V  L  ++AW LFK   GD     + ++   A +VA+AC GLP+AL  I   + 
Sbjct:   303 VHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMA 362

Query:   176 -NKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE- 233
               K+  +W   +  +      NFG V       ++ SY+ LE E +K  FL CSL   + 
Sbjct:   363 CKKTTQEWDRAVD-VSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDD 421

Query:   234 -IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLL-GGDNNEK--LSMHDV 289
              I    L  Y +C G   G +  + A    Y ++  L    LL+ GG  N K  + MHDV
Sbjct:   422 LIEKERLIDYWICEGFIDGDENKKGAVGEGYEILGTLVCASLLVEGGKFNNKSYVKMHDV 481

Query:   290 VRAVAISIAC----RDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQ 345
             VR +A+ IA        N +V     + E P     +    +S+ ++ I E+    ECP+
Sbjct:   482 VREMALWIASDLRKHKDNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPK 541

Query:   346 LEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFC-RMQFFSLPPSIDHLLNLQTLCLDQC 404
             L  L++  N   V  N+  +FF  M +L V+D    +    LP  I  L++L+ L L   
Sbjct:   542 LTTLFLQDNRHLV--NISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYS 599

Query:   405 ILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKV-IAPNVISSL 463
              +G + + G LK  +++  +   ++ L E +  +  L +L       L++ +  +++  L
Sbjct:   600 SIGRLPV-GLLKLKKLMHLNLESMLCL-ESVSGIDHLSNLKTVRLLNLRMWLTISLLEEL 657

Query:   464 IRLEEL 469
              RLE L
Sbjct:   658 ERLENL 663

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2008510 AT1G61190 "AT1G61190" [Arabidopsis thaliana (taxid:3702)]

 Score = 504 (182.5 bits), Expect = 1.5e-49, Sum P(2) = 1.5e-49
 Identities = 153/467 (32%), Positives = 243/467 (52%)

Query:     1 MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
             MGG+GKTTL K++  K A     FD V++  VSQ   + K+Q+ IAEKL L   + + + 
Sbjct:   181 MGGVGKTTLFKKIHNKFAETGGTFDIVIWIVVSQGAKLSKLQEDIAEKLHLCDDLWKNKN 240

Query:    57 ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
             ES +A+ +H  LK + + +++LD+IW++VDLE +GIP+  +   CK+  T RD+ V   M
Sbjct:   241 ESDKATDIHRVLKGK-RFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRDQKVCGQM 299

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDVENRE--LKSTATEVAKACKGLPIALTTIARAL 174
             G  K   V  L+ E+AW LFK   GD+    +  +   A EVA+ C+GLP+AL+ I   +
Sbjct:   300 GDHKPMQVKCLEPEDAWELFKNKVGDNTLRSDPVIVGLAREVAQKCRGLPLALSCIGETM 359

Query:   175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
              +K+M Q W+  +  L   S   F  +  +    ++ SY+ LE E +K+ FL C+L    
Sbjct:   360 ASKTMVQEWEHAIDVLTR-SAAEFSDMQNKILPILKYSYDSLEDEHIKSCFLYCALFPED 418

Query:   232 NEIATSDLFKYCMCLGIFKGVD-TMENARTNFYALIHQLRDCFLLLGGDNNEK--LSMHD 288
             ++I T  L    +C G F G D  ++ AR   Y ++  L    LL       K  + MHD
Sbjct:   419 DKIDTKTLINKWICEG-FIGEDQVIKRARNKGYEMLGTLIRANLLTNDRGFVKWHVVMHD 477

Query:   289 VVRAVAISIAC---RDQNALVVRNE----EVWEWPDEDALRKCYAISIRDSSIHELLEGL 341
             VVR +A+ IA    + +   VVR      E+ +  D  A+R+   +S+  + I E+    
Sbjct:   478 VVREMALWIASDFGKQKENYVVRARVGLHEIPKVKDWGAVRR---MSLMMNEIEEITCES 534

Query:   342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-LPPSIDHLLNLQTLC 400
             +C +L  L++ SN      N+  +F   M+KL V+D      F+ LP  I  L++LQ L 
Sbjct:   535 KCSELTTLFLQSNQLK---NLSGEFIRYMQKLVVLDLSHNPDFNELPEQISGLVSLQYLD 591

Query:   401 LDQCILGDVAI-IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDL 446
             L    +  + + + +LK L  L+   +  +     + +L  LR L L
Sbjct:   592 LSWTRIEQLPVGLKELKKLIFLNLCFTERLCSISGISRLLSLRWLSL 638

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 513 (185.6 bits), Expect = 2.6e-48, Sum P(2) = 2.6e-48
 Identities = 154/492 (31%), Positives = 249/492 (50%)

Query:     1 MGGIGKTTLVKEVARKARK-DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL---VLQEET 56
             MGG+GKTTL+ ++  K  K D  FD V++  VS++  ++KIQ+ IAEK+GL      E+ 
Sbjct:   184 MGGVGKTTLLTKINNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKN 243

Query:    57 ESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM 116
             ++  A  +H  L+R  K +++LD+IW++V+L+ VG+P+     GCK+  T R R V   M
Sbjct:   244 DNQIAVDIHNVLRRR-KFVLLLDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRM 302

Query:   117 GSEKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTATEVAKACKGLPIALTTIARAL 174
             G +    V  L+ EE+W LF++  G +    + ++   A +VA+ C+GLP+AL  I  A+
Sbjct:   303 GVDDPMEVSCLQPEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAM 362

Query:   175 RNK-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE 233
               K ++ +W   +  L   S ++F G+  E    ++ SY+ L GE +K+ FL CSL   +
Sbjct:   363 ACKRTVHEWCHAIDVLTS-SAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPED 421

Query:   234 --IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQL-RDCFLLLGGDNNEKLSMHDVV 290
               I    L  Y +  G     +  E      Y +I  L R C LL    N   + MHDVV
Sbjct:   422 YLIDKEGLVDYWISEGFINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVV 481

Query:   291 RAVAISIAC---RDQNALVVRN----EEVWEWPDEDALRKCYAISIRDSSIHELLEGLEC 343
             R +A+ I+    + +   +VR      EV +  D + +RK   IS+ ++ I E+ +  EC
Sbjct:   482 REMALWISSDLGKQKEKCIVRAGVGLREVPKVKDWNTVRK---ISLMNNEIEEIFDSHEC 538

Query:   344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-LPPSIDHL-----LNLQ 397
               L  L++  N     + +  +FF  M  L V+D    Q  + LP  I  L      NL 
Sbjct:   539 AALTTLFLQKNDV---VKISAEFFRCMPHLVVLDLSENQSLNELPEEISELASLRYFNLS 595

Query:   398 TLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAP 457
               C+ Q  +G +  + KL +L +   S  G +     +  L  LR L L +  +L ++  
Sbjct:   596 YTCIHQLPVG-LWTLKKLIHLNLEHMSSLGSIL---GISNLWNLRTLGLRDS-RL-LLDM 649

Query:   458 NVISSLIRLEEL 469
             +++  L  LE L
Sbjct:   650 SLVKELQLLEHL 661

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2170892 AT5G43730 [Arabidopsis thaliana (taxid:3702)]

 Score = 474 (171.9 bits), Expect = 8.2e-43, Sum P(2) = 8.2e-43
 Identities = 147/493 (29%), Positives = 245/493 (49%)

Query:     1 MGGIGKTTLVKEVARK-ARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKL--GLVLQEETE 57
             MGGIGKTTL++ +  K    +  FD V++  VS+   ++ IQ  I  +L      + ETE
Sbjct:   180 MGGIGKTTLLESLNNKFVELESEFDVVIWVVVSKDFQLEGIQDQILGRLRPDKEWERETE 239

Query:    58 SSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMG 117
             S +AS ++  LKR+ K +++LD++W  VDL  +G+P      G K++ T R + V   M 
Sbjct:   240 SKKASLINNNLKRK-KFVLLLDDLWSEVDLIKIGVPPPSRENGSKIVFTTRSKEVCKHMK 298

Query:   118 SEKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTATEVAKACKGLPIALTTIARALR 175
             ++K   VD L  +EAW LF+L  GD +   ++++ + A  VA  C GLP+AL  I +A+ 
Sbjct:   299 ADKQIKVDCLSPDEAWELFRLTVGDIILRSHQDIPALARIVAAKCHGLPLALNVIGKAMV 358

Query:   176 NK-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGN-- 232
              K ++ +W+  +  L  P    F G+       ++ SY+ L+  ++K  FL CSL     
Sbjct:   359 CKETVQEWRHAINVLNSPGH-KFPGMEERILPILKFSYDSLKNGEIKLCFLYCSLFPEDF 417

Query:   233 EIATSDLFKYCMCLGIFKGVDTMENARTNF-YALIHQLRDCFLLLGGDNNEKLSMHDVVR 291
             EI    L +Y +C G +   +  E+  TN  Y +I  L    LL+  +  +K+ MHDV+R
Sbjct:   418 EIEKDKLIEYWICEG-YINPNRYEDGGTNQGYDIIGLLVRAHLLIECELTDKVKMHDVIR 476

Query:   292 AVAISIAC---RDQNALVVRN-EEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLE 347
              +A+ I       Q  + V++   V   P++ +      +S+  + + ++     CP L 
Sbjct:   477 EMALWINSDFGNQQETICVKSGAHVRLIPNDISWEIVRQMSLISTQVEKIACSPNCPNLS 536

Query:   348 FLYMDSNGSSVEINVPEKFFTGMKKLKVVDFC-RMQFFSLPPSIDHLLNLQTLCLDQCIL 406
              L +  N   V+I+V   FF  M KL V+D         LP  I +L +LQ L L    +
Sbjct:   537 TLLLPYN-KLVDISVG--FFLFMPKLVVLDLSTNWSLIELPEEISNLGSLQYLNLSLTGI 593

Query:   407 GDVAI-IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCF-KLKVIAPNVISSLI 464
               + + + KL+ L  L+   + +  L   +G  T L +L +   F  L  +   ++  L 
Sbjct:   594 KSLPVGLKKLRKLIYLNLEFTNV--LESLVGIATTLPNLQVLKLFYSLFCVDDIIMEELQ 651

Query:   465 RLEELYMSNCFVE 477
             RL+ L +    +E
Sbjct:   652 RLKHLKILTATIE 664

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2005517 RPS2 "RESISTANT TO P. SYRINGAE 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 484 (175.4 bits), Expect = 1.6e-42, P = 1.6e-42
 Identities = 185/711 (26%), Positives = 338/711 (47%)

Query:     2 GGIGKTTLVKEVARKA-RKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE-ETESS 59
             GG+GKTTL++ +  +   K   +D +++ ++S+      IQQA+  +LGL   E ET  +
Sbjct:   184 GGVGKTTLMQSINNELITKGHQYDVLIWVQMSREFGECTIQQAVGARLGLSWDEKETGEN 243

Query:    60 RASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSE 119
             RA +++  L R+++ L++LD++W+ +DLE  G+P  D    CK++ T R   +  +MG+E
Sbjct:   244 RALKIYRAL-RQKRFLLLLDDVWEEIDLEKTGVPRPDRENKCKVMFTTRSIALCNNMGAE 302

Query:   120 KNFLVDILKEEEAWRLF--KLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNK 177
                 V+ L+++ AW LF  K+   D +E+  ++  A  +   C GLP+AL T+  A+ ++
Sbjct:   303 YKLRVEFLEKKHAWELFCSKVWRKDLLESSSIRRLAEIIVSKCGGLPLALITLGGAMAHR 362

Query:   178 SMPQ-WKTTLQQL-RMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGNE-- 233
                + W    + L R P+ +   G+    +  ++ SY+ LE + L++ FL C+L   E  
Sbjct:   363 ETEEEWIHASEVLTRFPAEMK--GMNY-VFALLKFSYDNLESDLLRSCFLYCALFPEEHS 419

Query:   234 IATSDLFKYCMCLGIFK---GVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVV 290
             I    L +Y +  G      GV+T+       Y LI  L+   LL  GD   ++ MH+VV
Sbjct:   420 IEIEQLVEYWVGEGFLTSSHGVNTIYKG----YFLIGDLKAACLLETGDEKTQVKMHNVV 475

Query:   291 RAVAISIACRD----QNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQL 346
             R+ A+ +A       +  LV  +    E P  +  R+   IS+ D+ I  L E L CP+L
Sbjct:   476 RSFALWMASEQGTYKELILVEPSMGHTEAPKAENWRQALVISLLDNRIQTLPEKLICPKL 535

Query:   347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCIL 406
               L +  N SS++  +P  FF  M  L+V+D        +P SI +L+ L  L +    +
Sbjct:   536 TTLMLQQN-SSLK-KIPTGFFMHMPVLRVLDLSFTSITEIPLSIKYLVELYHLSMSGTKI 593

Query:   407 GDVAI-IGKLKNLEILSFSGSGIVK-LPEE-LGQLTKLRHLDLSNCF---KLKVIAPNVI 460
               +   +G L+ L+ L    +  ++ +P + +  L+KL  L+L   +   +L+    +  
Sbjct:   594 SVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKLEVLNLYYSYAGWELQSFGEDEA 653

Query:   461 SSLIRLEELYMSNCFVEWEDEGPNSETINSRLD-ELMHLPRLTTLEVHVKNDNI---LPE 516
               L   +  Y+ N          + ET+ +  +   +H   +  L V   N+ +   LP 
Sbjct:   654 EELGFADLEYLEN-LTTLGITVLSLETLKTLFEFGALH-KHIQHLHVEECNELLYFNLPS 711

Query:   517 -GFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTI- 574
                  R L R  +S+     L +  T  D  F   W    +   E L TL    N T + 
Sbjct:   712 LTNHGRNLRR--LSIKSCHDLEYLVTPAD--FENDW----LPSLEVL-TLHSLHNLTRVW 762

Query:   575 -SSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVP 633
              +S   + ++N+  + +     +KNV +    +   +L+ + + +  +   ++   E   
Sbjct:   763 GNSVSQDCLRNIRCINISHCNKLKNVSW---VQKLPKLEVIELFDCREIEELISEHESPS 819

Query:   634 LHDA--FPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNI 682
             + D   FP L++L   +L +L  I   R S   F +++T+ + +C ++  +
Sbjct:   820 VEDPTLFPSLKTLRTRDLPELNSILPSRFS---FQKVETLVITNCPRVKKL 867

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0016045 "detection of bacterium" evidence=RCA;IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=RCA;IMP

GO:0000165 "MAPK cascade" evidence=RCA

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

GO:0009595 "detection of biotic stimulus" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

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

GO:0010200 "response to chitin" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

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

GO:0031347 "regulation of defense response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0043069 "negative regulation of programmed cell death" evidence=RCA

GO:0043900 "regulation of multi-organism process" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

GO:0050776 "regulation of immune response" evidence=RCA

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

GO:0051707 "response to other organism" evidence=RCA

---

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: eugene3.03110007 cc-nbs-lrr resistance protein (1315 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	1247
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	5e-45
pfam13401	124	pfam13401, AAA_22, AAA domain	3e-08
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	5e-06
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	2e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	0.002

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

 Score =  164 bits (416), Expect = 5e-45
 Identities = 84/257 (32%), Positives = 129/257 (50%), Gaps = 13/257 (5%)

Query: 1   MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV---LQEETE 57
           MGG+GKTTL K++         FD V +  VS+T    ++Q+ I ++LGL      E+ E
Sbjct: 27  MGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKDILQELGLDDSDWVEKNE 86

Query: 58  SSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMG 117
           S  A ++ E L R ++ L++LD++W++ D + +G+PF D   G ++++T R  +V   MG
Sbjct: 87  SELAVKIKEALLR-KRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVIVTTRSESVAGRMG 145

Query: 118 SEKNFL-VDILKEEEAWRLFKLMAG--DDVENRELKSTATEVAKACKGLPIALTTIARAL 174
                  V+ L+ EE+W LF       +     EL+  A E+ + CKGLP+AL  +   L
Sbjct: 146 GTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEKCKGLPLALKVLGGLL 205

Query: 175 RNKSMPQ-WKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLM--G 231
             KS  Q W+  L+QL    L    G+  E    + LSY+ L    LK  FL  +L    
Sbjct: 206 AFKSTVQEWEHVLEQLN-NELAGRDGL-NEVLSILSLSYDNLP-MHLKRCFLYLALFPED 262

Query: 232 NEIATSDLFKYCMCLGI 248
             I    L K  +  G 
Sbjct: 263 YNIRKEQLIKLWIAEGF 279

Length = 285

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 53.0 bits (128), Expect = 3e-08
 Identities = 25/79 (31%), Positives = 38/79 (48%), Gaps = 4/79 (5%)

Query: 3  GIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRAS 62
          G GKTTL++ +AR+        RVV+ E       K + + I   LGL L   T +    
Sbjct: 14 GSGKTTLLRRLARQLPNR----RVVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAELLE 69

Query: 63 RLHEQLKREEKILIILDNI 81
           + + LKR  + L+I+D  
Sbjct: 70 AILDALKRRGRPLLIIDEA 88

Length = 124

>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat

 Score = 44.8 bits (107), Expect = 5e-06
 Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 2/59 (3%)

Query: 417 NLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC 474
           NL+ L  S + +  +P+     L  L+ LDLS    L  I+P   S L  L  L +S  
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGN-NLTSISPEAFSGLPSLRSLDLSGN 58

Length = 60

>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]

 Score = 45.0 bits (106), Expect = 2e-04
 Identities = 34/105 (32%), Positives = 49/105 (46%), Gaps = 4/105 (3%)

Query: 371 KKLKVVDFCRMQFFSLPPSIDHL-LNLQTLCLDQCILGDVAI-IGKLKNLEILSFSGSGI 428
             L  +D        +PP I  L  NL+ L L    +  +   +  L NL+ L  S + +
Sbjct: 116 TNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDL 175

Query: 429 VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
             LP+ L  L+ L +LDLS   K+  + P  I  L  LEEL +SN
Sbjct: 176 SDLPKLLSNLSNLNNLDLSGN-KISDL-PPEIELLSALEELDLSN 218

Length = 394

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

 Score = 42.6 bits (100), Expect = 0.002
 Identities = 42/162 (25%), Positives = 75/162 (46%), Gaps = 15/162 (9%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
           P L  L++    S VE+    +    ++ L++ + C     +LP  I+ L +L++L L  
Sbjct: 778 PSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIEN-CI-NLETLPTGIN-LESLESLDLSG 834

Query: 404 C----ILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNV 459
           C       D++      N+  L+ S +GI ++P  + + + L  LD++ C  L+ ++ N 
Sbjct: 835 CSRLRTFPDIS-----TNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLN- 888

Query: 460 ISSLIRLEELYMSNC--FVEWEDEGPNSETINSRLDELMHLP 499
           IS L  LE +  S+C    E    G  SE   +  +    LP
Sbjct: 889 ISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHSKLP 930

syringae 6; Provisional. Length = 1153

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1247
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.87
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.86
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.84
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.83
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.82
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.81
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.78
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.77
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.77
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.57
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.49
KOG4341	483	consensus F-box protein containing LRR [General fu	99.41
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.37
KOG4341	483	consensus F-box protein containing LRR [General fu	99.37
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.34
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.3
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.3
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.28
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.23
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.19
PRK04841	903	transcriptional regulator MalT; Provisional	99.15
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.97
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.96
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.93
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.91
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.91
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.9
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.8
PF05729	166	NACHT: NACHT domain	98.75
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	98.74
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.71
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.7
COG3903	414	Predicted ATPase [General function prediction only	98.61
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.61
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.6
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.58
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.52
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.44
PRK15386	426	type III secretion protein GogB; Provisional	98.37
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.34
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.23
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.2
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.19
PRK15386	426	type III secretion protein GogB; Provisional	98.17
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.17
KOG1947	482	consensus Leucine rich repeat proteins, some prote	98.13
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.13
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.11
PLN03150	623	hypothetical protein; Provisional	98.1
PLN03150	623	hypothetical protein; Provisional	98.09
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.08
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.05
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.99
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.96
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	97.94
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.9
PRK06893	229	DNA replication initiation factor; Validated	97.89
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	97.88
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.83
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.83
PF13173	128	AAA_14: AAA domain	97.81
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.79
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.78
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.75
PRK13342	413	recombination factor protein RarA; Reviewed	97.71
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	97.7
COG3899	849	Predicted ATPase [General function prediction only	97.61
PF14516	331	AAA_35: AAA-like domain	97.56
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	97.54
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.53
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.53
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	97.52
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	97.5
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.48
PRK08727	233	hypothetical protein; Validated	97.48
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	97.47
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.47
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	97.45
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.43
cd01128	249	rho_factor Transcription termination factor rho is	97.41
PRK09376	416	rho transcription termination factor Rho; Provisio	97.41
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.4
PRK04195	482	replication factor C large subunit; Provisional	97.37
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.37
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.34
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	97.33
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.29
PRK08084	235	DNA replication initiation factor; Provisional	97.28
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.26
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.26
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.23
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.18
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.17
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.14
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.13
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.13
PRK12402	337	replication factor C small subunit 2; Reviewed	97.12
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.11
PRK05642	234	DNA replication initiation factor; Validated	97.1
PLN03025	319	replication factor C subunit; Provisional	97.09
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.07
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.07
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.06
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.04
PRK09087	226	hypothetical protein; Validated	97.03
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.03
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.01
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.0
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	97.0
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	96.99
PRK09112	351	DNA polymerase III subunit delta'; Validated	96.99
PRK00440	319	rfc replication factor C small subunit; Reviewed	96.94
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	96.94
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	96.93
PRK07471	365	DNA polymerase III subunit delta'; Validated	96.92
KOG2028	554	consensus ATPase related to the helicase subunit o	96.91
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.87
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	96.86
PRK13341	725	recombination factor protein RarA/unknown domain f	96.81
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	96.8
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	96.78
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	96.78
PRK05707	328	DNA polymerase III subunit delta'; Validated	96.75
TIGR00767	415	rho transcription termination factor Rho. Members	96.71
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	96.7
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	96.69
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	96.68
PRK14088	440	dnaA chromosomal replication initiation protein; P	96.68
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.67
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	96.66
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	96.64
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	96.6
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	96.59
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	96.55
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	96.48
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	96.47
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	96.46
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	96.42
PRK14086	617	dnaA chromosomal replication initiation protein; P	96.34
CHL00181	287	cbbX CbbX; Provisional	96.33
PRK00149	450	dnaA chromosomal replication initiation protein; R	96.33
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	96.28
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	96.28
PF00004	132	AAA: ATPase family associated with various cellula	96.27
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.26
PRK07399	314	DNA polymerase III subunit delta'; Validated	96.25
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	96.24
PRK12422	445	chromosomal replication initiation protein; Provis	96.21
PRK04132	846	replication factor C small subunit; Provisional	96.16
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.09
PRK06620	214	hypothetical protein; Validated	96.05
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.05
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	95.95
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	95.94
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.92
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	95.9
PRK08769	319	DNA polymerase III subunit delta'; Validated	95.9
PRK03992	389	proteasome-activating nucleotidase; Provisional	95.89
smart00382	148	AAA ATPases associated with a variety of cellular	95.84
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	95.79
PHA02544	316	44 clamp loader, small subunit; Provisional	95.71
PRK06090	319	DNA polymerase III subunit delta'; Validated	95.69
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	95.64
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	95.62
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	95.6
PRK06871	325	DNA polymerase III subunit delta'; Validated	95.57
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	95.56
CHL00195	489	ycf46 Ycf46; Provisional	95.48
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	95.44
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	95.28
COG0593	408	DnaA ATPase involved in DNA replication initiation	95.24
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	95.21
CHL00176	638	ftsH cell division protein; Validated	95.2
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	95.16
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	95.13
PRK12608	380	transcription termination factor Rho; Provisional	95.11
PRK08116	268	hypothetical protein; Validated	95.11
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	95.07
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.01
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.01
PRK08058	329	DNA polymerase III subunit delta'; Validated	94.96
PRK07993	334	DNA polymerase III subunit delta'; Validated	94.94
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	94.83
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	94.81
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	94.62
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	94.46
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.41
CHL00095	821	clpC Clp protease ATP binding subunit	94.41
PRK08181	269	transposase; Validated	94.35
PRK06964	342	DNA polymerase III subunit delta'; Validated	94.34
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.29
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.2
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	94.07
KOG3864	221	consensus Uncharacterized conserved protein [Funct	94.06
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	94.04
TIGR02237	209	recomb_radB DNA repair and recombination protein R	93.62
KOG3864	221	consensus Uncharacterized conserved protein [Funct	93.53
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	93.53
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	93.49
PRK10536	262	hypothetical protein; Provisional	93.45
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	93.44
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	93.35
PRK06921	266	hypothetical protein; Provisional	93.34
PRK06526	254	transposase; Provisional	93.34
PTZ00202	550	tuzin; Provisional	93.29
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	93.23
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	93.17
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	92.95
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	92.87
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	92.8
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	92.78
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	92.72
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	92.67
PRK09183	259	transposase/IS protein; Provisional	92.62
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	92.57
PRK09354	349	recA recombinase A; Provisional	92.53
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	92.51
PRK07132	299	DNA polymerase III subunit delta'; Validated	92.49
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	92.43
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	92.41
PRK08939	306	primosomal protein DnaI; Reviewed	92.39
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	92.38
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	92.37
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	92.34
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	92.34
cd00983	325	recA RecA is a bacterial enzyme which has roles in	92.29
PRK07952	244	DNA replication protein DnaC; Validated	92.27
PRK04296	190	thymidine kinase; Provisional	92.24
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.13
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	92.04
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	91.97
PRK07276	290	DNA polymerase III subunit delta'; Validated	91.92
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	91.89
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	91.69
PRK12377	248	putative replication protein; Provisional	91.67
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	91.53
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	91.45
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	91.43
PRK08118	167	topology modulation protein; Reviewed	91.41
PRK10865	857	protein disaggregation chaperone; Provisional	91.37
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	91.33
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	91.33
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	91.31
PRK07261	171	topology modulation protein; Provisional	91.3
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	91.17
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	91.15
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	91.06
PRK08699	325	DNA polymerase III subunit delta'; Validated	91.01
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	90.91
PRK10865	857	protein disaggregation chaperone; Provisional	90.65
PRK06835	329	DNA replication protein DnaC; Validated	90.62
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	90.56
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	90.52
PHA00729	226	NTP-binding motif containing protein	90.45
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	90.43
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	90.16
PRK05541	176	adenylylsulfate kinase; Provisional	90.02
PF00154	322	RecA: recA bacterial DNA recombination protein; In	89.91
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	89.79
cd01394	218	radB RadB. The archaeal protein radB shares simila	89.75
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	89.67
cd03115	173	SRP The signal recognition particle (SRP) mediates	89.47
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	89.43
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	89.33
CHL00095	821	clpC Clp protease ATP binding subunit	89.27
TIGR02236	310	recomb_radA DNA repair and recombination protein R	89.19
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	89.06
KOG0736	953	consensus Peroxisome assembly factor 2 containing	89.0
KOG0473	326	consensus Leucine-rich repeat protein [Function un	88.98
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	88.96
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	88.86
PTZ00035	337	Rad51 protein; Provisional	88.58
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	88.39
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	88.13
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	88.09
PRK04301	317	radA DNA repair and recombination protein RadA; Va	88.07
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	88.07
PRK04328	249	hypothetical protein; Provisional	88.05
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	87.96
PRK08533	230	flagellar accessory protein FlaH; Reviewed	87.77
smart00367	26	LRR_CC Leucine-rich repeat - CC (cysteine-containi	87.77
PRK13849	231	putative crown gall tumor protein VirC1; Provision	87.77
COG1484	254	DnaC DNA replication protein [DNA replication, rec	87.65
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	87.61
PRK11823	446	DNA repair protein RadA; Provisional	87.33
KOG1969	877	consensus DNA replication checkpoint protein CHL12	87.29
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	87.27
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	87.15
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	87.14
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	86.92
PRK09519	790	recA DNA recombination protein RecA; Reviewed	86.44
PHA02518	211	ParA-like protein; Provisional	86.32
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	86.22
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	86.17
smart00370	26	LRR Leucine-rich repeats, outliers.	86.08
smart00369	26	LRR_TYP Leucine-rich repeats, typical (most popula	86.08
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	85.98
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	85.92
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	85.78
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	85.76
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	85.72
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	85.66
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	85.6
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	85.48
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	85.4
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	85.2
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	85.03
PRK05917	290	DNA polymerase III subunit delta'; Validated	84.98
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	84.86
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	84.81
PRK06067	234	flagellar accessory protein FlaH; Validated	84.7
PF07726	131	AAA_3: ATPase family associated with various cellu	84.48
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	84.46
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	84.43
CHL00206	2281	ycf2 Ycf2; Provisional	84.41
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	84.38
PRK00771	437	signal recognition particle protein Srp54; Provisi	84.3
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	84.15
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	84.0
COG1192	259	Soj ATPases involved in chromosome partitioning [C	83.95
PRK14974	336	cell division protein FtsY; Provisional	83.91
KOG0473	326	consensus Leucine-rich repeat protein [Function un	83.9
PRK10867	433	signal recognition particle protein; Provisional	83.81
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	83.78
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	83.76
KOG1514	767	consensus Origin recognition complex, subunit 1, a	83.58
cd02037	169	MRP-like MRP (Multiple Resistance and pH adaptatio	83.42
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	83.4
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	83.34
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	83.32
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	83.2
TIGR00959	428	ffh signal recognition particle protein. This mode	82.95
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	82.9
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	82.83
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	82.8
KOG3347	176	consensus Predicted nucleotide kinase/nuclear prot	82.6
PF01656	195	CbiA: CobQ/CobB/MinD/ParA nucleotide binding domai	82.45
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	82.06
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	82.04
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	82.03
TIGR00064	272	ftsY signal recognition particle-docking protein F	81.93
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	81.87
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	81.83
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	81.83
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	81.83
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	81.79
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	81.73
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	81.53
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	81.44
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	81.43
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	81.16
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	81.08
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	81.07
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	81.02
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	81.02
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	81.01
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	80.91
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	80.88
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	80.84
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	80.79
PRK04196	460	V-type ATP synthase subunit B; Provisional	80.42
PTZ00185	574	ATPase alpha subunit; Provisional	80.26
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	80.21
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	80.16
PRK08233	182	hypothetical protein; Provisional	80.14

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.8e-66  Score=622.22  Aligned_cols=470  Identities=32%  Similarity=0.535  Sum_probs=385.3

Q ss_pred             CCCccHHHHHHHHHHHhh-hccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcccc---chHHHHHHHHHHHhcCCeEEE
Q 000869            1 MGGIGKTTLVKEVARKAR-KDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE---TESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~-~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~---~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      |||+||||||+++.++.. ++.+||.++||.+++.++...++++|+..++......   ...+.+..+.+.+. ++|++|
T Consensus       187 MGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~~~L~-~krfll  265 (889)
T KOG4658|consen  187 MGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILERLGLLDEEWEDKEEDELASKLLNLLE-GKRFLL  265 (889)
T ss_pred             CCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHHHhccCCcccchhhHHHHHHHHHHHhc-cCceEE
Confidence            899999999999999998 8999999999999999999999999999998754433   23456667777775 999999


Q ss_pred             EEeCCCCcccchhhccCCCCCCCCcEEEEecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCC--CCChhhHHHH
Q 000869           77 ILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDD--VENRELKSTA  153 (1247)
Q Consensus        77 vlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~--~~~~~~~~~~  153 (1247)
                      |+||||+..+|+.++.+++....||||++|||+..|+.. ++....++++.|+.+|||.+|.+.++..  ...+.+++.|
T Consensus       266 vLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~la  345 (889)
T KOG4658|consen  266 VLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPIEVECLTPEEAWDLFQKKVGPNTLGSHPDIEELA  345 (889)
T ss_pred             EEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccccccccCccccHHHHHHhhccccccccccHHHHH
Confidence            999999999999999999999899999999999999997 7888899999999999999999999643  2334589999


Q ss_pred             HHHHHHcCCCchHHHHHHHHHhcC-ChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHHhccCCCC
Q 000869          154 TEVAKACKGLPIALTTIARALRNK-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGN  232 (1247)
Q Consensus       154 ~~i~~~~~g~Plai~~~a~~l~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~~~a~fp~  232 (1247)
                      ++|+++|+|+|+|+.++|+.++.+ +..+|+++.+.+......+++++.+.+++++++||+.||++ +|.||+|||.||+
T Consensus       346 k~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~-lK~CFLycalFPE  424 (889)
T KOG4658|consen  346 KEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEE-LKSCFLYCALFPE  424 (889)
T ss_pred             HHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHH-HHHHHHhhccCCc
Confidence            999999999999999999999999 88899999999988867677778889999999999999976 9999999999998


Q ss_pred             C--cChhHHHHHHHhcCcccccccHHHHHHHHHHHHHHHhhcceeeccC---CCCceeccHHHHHHHHHhhh-----ccc
Q 000869          233 E--IATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGD---NNEKLSMHDVVRAVAISIAC-----RDQ  302 (1247)
Q Consensus       233 ~--~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~---~~~~~~~h~lv~~~~~~~~~-----~e~  302 (1247)
                      |  |.++.++.+|+|+||+++....+.+.+.+.+++++|++++++....   ...+|+|||+||++|.++++     .|.
T Consensus       425 D~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~  504 (889)
T KOG4658|consen  425 DYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALWIASDFGKQEEN  504 (889)
T ss_pred             ccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHHHhccccccccc
Confidence            6  9999999999999999886666777788888899999999998764   34689999999999999999     666


Q ss_pred             cceeecCccccCCCChhhcccceEEEccCCccccccCcCCCCCccEEEccCCCC-ccccccchhhhcCCCCCcEEEccCC
Q 000869          303 NALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGS-SVEINVPEKFFTGMKKLKVVDFCRM  381 (1247)
Q Consensus       303 ~~~~~~~~~~~~~~~~~~~~~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~n~~-~~~~~l~~~~~~~l~~Lr~L~Ls~~  381 (1247)
                      .++ ..+......|+...+..+|++++.++.+..++....+++|++|.+.+|.. ..  .++..+|..|++||+|||++|
T Consensus       505 ~iv-~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tLll~~n~~~l~--~is~~ff~~m~~LrVLDLs~~  581 (889)
T KOG4658|consen  505 QIV-SDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTLLLQRNSDWLL--EISGEFFRSLPLLRVLDLSGN  581 (889)
T ss_pred             eEE-ECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceEEEeecchhhh--hcCHHHHhhCcceEEEECCCC
Confidence            333 22334555676677889999999999999999999999999999999973 22  458888999999999999975


Q ss_pred             -CCccCCcccccCCCCcEEEccCcCCCCcccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhh
Q 000869          382 -QFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVI  460 (1247)
Q Consensus       382 -~i~~lp~~l~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~  460 (1247)
                       .+.++|++|+.|.                      |||||+++++.+..+|.++++|..|.+|++..+..+..+ ++.+
T Consensus       582 ~~l~~LP~~I~~Li----------------------~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~-~~i~  638 (889)
T KOG4658|consen  582 SSLSKLPSSIGELV----------------------HLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESI-PGIL  638 (889)
T ss_pred             CccCcCChHHhhhh----------------------hhhcccccCCCccccchHHHHHHhhheeccccccccccc-cchh
Confidence             4557777665554                      455555555666667777777777777777666444444 4545


Q ss_pred             cCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEe
Q 000869          461 SSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH  507 (1247)
Q Consensus       461 ~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  507 (1247)
                      ..|.+||+|.+.....         ......+.++..+.+|+.+...
T Consensus       639 ~~L~~Lr~L~l~~s~~---------~~~~~~l~el~~Le~L~~ls~~  676 (889)
T KOG4658|consen  639 LELQSLRVLRLPRSAL---------SNDKLLLKELENLEHLENLSIT  676 (889)
T ss_pred             hhcccccEEEeecccc---------ccchhhHHhhhcccchhhheee
Confidence            5577777777654421         1223344555555666655553

>PLN03210 Resistant to P

Probab=100.00  E-value=8.1e-55  Score=560.98  Aligned_cols=659  Identities=21%  Similarity=0.268  Sum_probs=415.3

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcC---Ccc-----------C-HHHHHHHHHHHhCCCccccchHHHHHHHH
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVS---QTI-----------D-IKKIQQAIAEKLGLVLQEETESSRASRLH   65 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~---~~~-----------~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~   65 (1247)
                      |||+||||||+++|++...  .|++.+|++..   ...           . ...++++++..+......  .......++
T Consensus       215 ~gGiGKTTLA~~l~~~l~~--~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~--~~~~~~~~~  290 (1153)
T PLN03210        215 SSGIGKTTIARALFSRLSR--QFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDI--KIYHLGAME  290 (1153)
T ss_pred             CCCCchHHHHHHHHHHHhh--cCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCc--ccCCHHHHH
Confidence            7999999999999998764  49998887531   100           0 123444444443211110  011123455


Q ss_pred             HHHhcCCeEEEEEeCCCCcccchhhccCCCCCCCCcEEEEecCChhhhhhcCCcceEEcCCCCHHHHHHHHHHHhC-CCC
Q 000869           66 EQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFKLMAG-DDV  144 (1247)
Q Consensus        66 ~~l~~~~~~LlvlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~~~~~~~~~l~~l~~~ea~~l~~~~~~-~~~  144 (1247)
                      +++. ++|+||||||||+.++|+.+.....+.+.|++||||||++.++...+....|+++.+++++|+++|.++|+ ...
T Consensus       291 ~~L~-~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~  369 (1153)
T PLN03210        291 ERLK-HRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS  369 (1153)
T ss_pred             HHHh-CCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCC
Confidence            6665 89999999999999999998777777789999999999999988767778999999999999999999995 333


Q ss_pred             CChhhHHHHHHHHHHcCCCchHHHHHHHHHhcCChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHH
Q 000869          145 ENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIF  224 (1247)
Q Consensus       145 ~~~~~~~~~~~i~~~~~g~Plai~~~a~~l~~~~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~  224 (1247)
                      +..+..+++.+|+++|+|+|||++++|++|++++..+|++++++++..       .+.++..+|++||+.|++++.|.||
T Consensus       370 ~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~-------~~~~I~~~L~~SYd~L~~~~~k~~F  442 (1153)
T PLN03210        370 PPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNG-------LDGKIEKTLRVSYDGLNNKKDKAIF  442 (1153)
T ss_pred             CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhC-------ccHHHHHHHHHhhhccCccchhhhh
Confidence            455678899999999999999999999999999999999999998753       2457999999999999864369999


Q ss_pred             HhccCCCCCcChhHHHHHHHhcCcccccccHHHHHHHHHHHHHHHhhcceeeccCCCCceeccHHHHHHHHHhhhccccc
Q 000869          225 LLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNNEKLSMHDVVRAVAISIACRDQNA  304 (1247)
Q Consensus       225 ~~~a~fp~~~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~~~~~~~~h~lv~~~~~~~~~~e~~~  304 (1247)
                      +++|+|+.+...+.+ ..|.+.+....           ...++.|++++|++..  .+.|.|||++|+||++++.++...
T Consensus       443 l~ia~ff~~~~~~~v-~~~l~~~~~~~-----------~~~l~~L~~ksLi~~~--~~~~~MHdLl~~~~r~i~~~~~~~  508 (1153)
T PLN03210        443 RHIACLFNGEKVNDI-KLLLANSDLDV-----------NIGLKNLVDKSLIHVR--EDIVEMHSLLQEMGKEIVRAQSNE  508 (1153)
T ss_pred             heehhhcCCCCHHHH-HHHHHhcCCCc-----------hhChHHHHhcCCEEEc--CCeEEhhhHHHHHHHHHHHhhcCC
Confidence            999999988777654 55555543321           1238889999999764  467999999999999998766421


Q ss_pred             eeecCccccCC-------CChhhcccceEEEccCCccccccC----cCCCCCccEEEccCCCCc----cccccchhhhcC
Q 000869          305 LVVRNEEVWEW-------PDEDALRKCYAISIRDSSIHELLE----GLECPQLEFLYMDSNGSS----VEINVPEKFFTG  369 (1247)
Q Consensus       305 ~~~~~~~~~~~-------~~~~~~~~~~~l~l~~~~i~~~~~----~~~~~~L~~L~l~~n~~~----~~~~l~~~~~~~  369 (1247)
                      . .+....+..       ......++++.+++..+.+.++.-    ..++++|+.|.+..+...    ....+|.++..-
T Consensus       509 ~-~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~l  587 (1153)
T PLN03210        509 P-GEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYL  587 (1153)
T ss_pred             C-CcceeEeCHHHHHHHHHhCcccceeeEEEeccCccceeeecHHHHhcCccccEEEEecccccccccceeecCcchhhc
Confidence            1 011111110       111123455666665554443211    125566666665443211    011234433222


Q ss_pred             CCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-ccccCCCCCcEEEccCC-CCCcCchhhcCCCCCcEEecc
Q 000869          370 MKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGS-GIVKLPEELGQLTKLRHLDLS  447 (1247)
Q Consensus       370 l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~L~~~-~i~~lp~~i~~L~~L~~L~L~  447 (1247)
                      ..+||+|++.++.+..+|..+ ...+|+.|++.+|.+..+ ..+..+++|++|+|+++ .+..+|. ++.+++|++|+++
T Consensus       588 p~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L~L~  665 (1153)
T PLN03210        588 PPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETLKLS  665 (1153)
T ss_pred             CcccEEEEecCCCCCCCCCcC-CccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEEEec
Confidence            234666666666666666554 345666666666655554 44555666666666554 3445552 5555666666666


Q ss_pred             CCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchhhccccceee
Q 000869          448 NCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFK  527 (1247)
Q Consensus       448 ~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~l~  527 (1247)
                      +|..+..+| ..++++.+|+.|++++|...           ...+..+ ++++|+.|+++++.                 
T Consensus       666 ~c~~L~~lp-~si~~L~~L~~L~L~~c~~L-----------~~Lp~~i-~l~sL~~L~Lsgc~-----------------  715 (1153)
T PLN03210        666 DCSSLVELP-SSIQYLNKLEDLDMSRCENL-----------EILPTGI-NLKSLYRLNLSGCS-----------------  715 (1153)
T ss_pred             CCCCccccc-hhhhccCCCCEEeCCCCCCc-----------CccCCcC-CCCCCCEEeCCCCC-----------------
Confidence            655555553 23555666666665554322           0111111 34444444443321                 


Q ss_pred             EEecCccccCCCCcCccccccccCCcccccccccceeeeeccCcccccccccccccceeEEeeccccCcchhhhcccccC
Q 000869          528 ISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEG  607 (1247)
Q Consensus       528 i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~  607 (1247)
                                                                                         ......     ..
T Consensus       716 -------------------------------------------------------------------~L~~~p-----~~  723 (1153)
T PLN03210        716 -------------------------------------------------------------------RLKSFP-----DI  723 (1153)
T ss_pred             -------------------------------------------------------------------Cccccc-----cc
Confidence                                                                               111000     00


Q ss_pred             cCCCcEEEeecCCCceeeccCCCcCccCCcccccceeccccccccccc----ccCccccccccccceEEEeccCCCcccc
Q 000869          608 FSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERI----CQDRLSVQSFNELKTIRVEHCGQLSNIF  683 (1247)
Q Consensus       608 ~~~L~~L~l~~~~~~~~i~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~----~~~~~~~~~l~~L~~L~l~~c~~l~~l~  683 (1247)
                      .++|+.|.+.++. +..+       +....+++|++|.+.++....-+    ..........++|+.|++.+|+.+..+|
T Consensus       724 ~~nL~~L~L~~n~-i~~l-------P~~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP  795 (1153)
T PLN03210        724 STNISWLDLDETA-IEEF-------PSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELP  795 (1153)
T ss_pred             cCCcCeeecCCCc-cccc-------cccccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccC
Confidence            1233333333322 1111       11112334444444332211000    0000011234678888888888777765


Q ss_pred             chHHhhhcCcccEEeeccCccHHHHHhcCCCcccccccccccCccceEecCCCCCccccchhhhhhhccccccccccccc
Q 000869          684 LLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEI  763 (1247)
Q Consensus       684 ~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~~~p~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~~~~~~~  763 (1247)
                      ..  ..++++|+.|++++|..++.++...           .+++|+.|++++|..+..++.                   
T Consensus       796 ~s--i~~L~~L~~L~Ls~C~~L~~LP~~~-----------~L~sL~~L~Ls~c~~L~~~p~-------------------  843 (1153)
T PLN03210        796 SS--IQNLHKLEHLEIENCINLETLPTGI-----------NLESLESLDLSGCSRLRTFPD-------------------  843 (1153)
T ss_pred             hh--hhCCCCCCEEECCCCCCcCeeCCCC-----------CccccCEEECCCCCccccccc-------------------
Confidence            43  5678888888888888877665321           478899999999988876643                   


Q ss_pred             cccccccCCCccccccccccCCccceecccccccccccccccccccCccccccEEEEccCcccccccchhHHhhhcccCe
Q 000869          764 SRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQH  843 (1247)
Q Consensus       764 ~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~  843 (1247)
                                        ..++|+.|+++++.+..+..      .+..+++|+.|++.+|++++.+++  ....+++|+.
T Consensus       844 ------------------~~~nL~~L~Ls~n~i~~iP~------si~~l~~L~~L~L~~C~~L~~l~~--~~~~L~~L~~  897 (1153)
T PLN03210        844 ------------------ISTNISDLNLSRTGIEEVPW------WIEKFSNLSFLDMNGCNNLQRVSL--NISKLKHLET  897 (1153)
T ss_pred             ------------------cccccCEeECCCCCCccChH------HHhcCCCCCEEECCCCCCcCccCc--ccccccCCCe
Confidence                              14678889998887776532      123678899999999999988744  3467888899


Q ss_pred             eeeccccccceee
Q 000869          844 LEIACCERLQEII  856 (1247)
Q Consensus       844 L~l~~c~~l~~i~  856 (1247)
                      |++++|.+++.+.
T Consensus       898 L~l~~C~~L~~~~  910 (1153)
T PLN03210        898 VDFSDCGALTEAS  910 (1153)
T ss_pred             eecCCCccccccc
Confidence            9999998886543

syringae 6; Provisional

>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=3.2e-34  Score=317.60  Aligned_cols=248  Identities=33%  Similarity=0.549  Sum_probs=198.1

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc----ccchHHHHHHHHHHHhcCCeEEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ----EETESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      |||+||||||++++++...++.|++++|++++...+..+++++|+.+++....    ..+.......+.+.+. ++++||
T Consensus        27 ~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~L~-~~~~Ll  105 (287)
T PF00931_consen   27 MGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSSISDPKDIEELQDQLRELLK-DKRCLL  105 (287)
T ss_dssp             STTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHHHHHC-CTSEEE
T ss_pred             CCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhc-ccccee
Confidence            79999999999999997777889999999999998889999999999988743    2344556677777766 779999


Q ss_pred             EEeCCCCcccchhhccCCCCCCCCcEEEEecCChhhhhhcCC-cceEEcCCCCHHHHHHHHHHHhCCCC--CChhhHHHH
Q 000869           77 ILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGS-EKNFLVDILKEEEAWRLFKLMAGDDV--ENRELKSTA  153 (1247)
Q Consensus        77 vlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~~~~-~~~~~l~~l~~~ea~~l~~~~~~~~~--~~~~~~~~~  153 (1247)
                      ||||||+...|+.+...++....|++||||||+..++..... ...+++++|+.+||+++|.+.++...  .....++.+
T Consensus       106 VlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~L~~~~~~~~~~~~~~~~~~~~  185 (287)
T PF00931_consen  106 VLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSEEEALELFKKRAGRKESESPEDLEDLA  185 (287)
T ss_dssp             EEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--HHHHHHHHHHHHTSHS----TTSCTHH
T ss_pred             eeeeeccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            999999999998887777777789999999999998775544 67999999999999999999996433  334556789


Q ss_pred             HHHHHHcCCCchHHHHHHHHHhcC-ChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHHhccCCCC
Q 000869          154 TEVAKACKGLPIALTTIARALRNK-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSLMGN  232 (1247)
Q Consensus       154 ~~i~~~~~g~Plai~~~a~~l~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~~~a~fp~  232 (1247)
                      .+|+++|+|+|+||.++|++++.+ +..+|..+++++...... ..+....++.++.+||+.|+++ +|+||.+||+||.
T Consensus       186 ~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~~l~~s~~~L~~~-~~~~f~~L~~f~~  263 (287)
T PF00931_consen  186 KEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFSALELSYDSLPDE-LRRCFLYLSIFPE  263 (287)
T ss_dssp             HHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHHHHHHHHHSSHTC-CHHHHHHGGGSGT
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccc-cccccccccccceechhcCCcc-HHHHHhhCcCCCC
Confidence            999999999999999999999665 788999999887755432 2335678999999999999998 8999999999998


Q ss_pred             C--cChhHHHHHHHhcCcccc
Q 000869          233 E--IATSDLFKYCMCLGIFKG  251 (1247)
Q Consensus       233 ~--~~~~~l~~~w~~~g~~~~  251 (1247)
                      +  |+.+.++++|+++|++..
T Consensus       264 ~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  264 GVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             TS-EEHHHHHHHHTT-HHTC-
T ss_pred             CceECHHHHHHHHHHCCCCcc
Confidence            6  889999999999999864

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.

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=99.97  E-value=1.1e-30  Score=340.24  Aligned_cols=513  Identities=18%  Similarity=0.156  Sum_probs=306.7

Q ss_pred             ccceEEEccCCccccccC--cCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCc-cCCcccccCCCCcE
Q 000869          322 RKCYAISIRDSSIHELLE--GLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSIDHLLNLQT  398 (1247)
Q Consensus       322 ~~~~~l~l~~~~i~~~~~--~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~lp~~l~~l~~L~~  398 (1247)
                      .+++.+++.++.+.....  ...+++|++|++++|.+...+  |.++|..+++|++|+|++|.+. .+|.  +.+++|++
T Consensus        69 ~~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~~~~~i--p~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~  144 (968)
T PLN00113         69 SRVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQLSGPI--PDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLET  144 (968)
T ss_pred             CcEEEEEecCCCccccCChHHhCCCCCCEEECCCCccCCcC--ChHHhccCCCCCEEECcCCccccccCc--cccCCCCE
Confidence            478889998887765443  237899999999999887655  8888889999999999999887 4454  56889999


Q ss_pred             EEccCcCCCC--cccccCCCCCcEEEccCCCCC-cCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCc
Q 000869          399 LCLDQCILGD--VAIIGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF  475 (1247)
Q Consensus       399 L~L~~~~l~~--~~~~~~L~~L~~L~L~~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~  475 (1247)
                      |+|++|.+..  +..++++++|++|++++|.+. .+|..++++++|++|++++| .+....|..++++++|++|++++|.
T Consensus       145 L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n-~l~~~~p~~l~~l~~L~~L~L~~n~  223 (968)
T PLN00113        145 LDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASN-QLVGQIPRELGQMKSLKWIYLGYNN  223 (968)
T ss_pred             EECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCC-CCcCcCChHHcCcCCccEEECcCCc
Confidence            9999998864  267899999999999999775 78888999999999999998 5555556678999999999998886


Q ss_pred             cccccCCCCcccccccccccCCCCCCcEEEEeecCCCC-CCchh-hccccceeeEEecCccccCCCCcCccccccccCCc
Q 000869          476 VEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNI-LPEGF-FARKLERFKISVGEAAFLPFGATSNDACFRLSWPL  553 (1247)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~-~~~~~-~~~~L~~l~i~~~~l~~~~~~~~~~~~~~~~~~~~  553 (1247)
                      +.           ...+..++.+++|++|++++|.... +|..+ .+++|+.|.++.+.+                    
T Consensus       224 l~-----------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l--------------------  272 (968)
T PLN00113        224 LS-----------GEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKL--------------------  272 (968)
T ss_pred             cC-----------CcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCee--------------------
Confidence            65           3455678888999999988776542 33222 333344333332221                    


Q ss_pred             ccccccccceeeeeccCcccccccccccccceeEEeeccccCcchhhhcccccCcCCCcEEEeecCCCceeeccCCCcCc
Q 000869          554 FMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVP  633 (1247)
Q Consensus       554 ~~~~~~~~l~~L~l~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~L~~L~l~~~~~~~~i~~~~~~~~  633 (1247)
                                        ....+..+.++++|+.|+++++.........+  ..+++|+.|++.+|.....+        
T Consensus       273 ------------------~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~--~~l~~L~~L~l~~n~~~~~~--------  324 (968)
T PLN00113        273 ------------------SGPIPPSIFSLQKLISLDLSDNSLSGEIPELV--IQLQNLEILHLFSNNFTGKI--------  324 (968)
T ss_pred             ------------------eccCchhHhhccCcCEEECcCCeeccCCChhH--cCCCCCcEEECCCCccCCcC--------
Confidence                              11112234455566666666543221111111  23455555555554322111        


Q ss_pred             cCCcccccceecccccccccccccCccccccccccceEEEeccCCCccccchHHhhhcCcccEEeeccCccHHHHHhcCC
Q 000869          634 LHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGG  713 (1247)
Q Consensus       634 ~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~l~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~  713 (1247)
                                               +.....+++|+.|++.+|.-...++.  ....+++|+.|+++++.-...++    
T Consensus       325 -------------------------~~~~~~l~~L~~L~L~~n~l~~~~p~--~l~~~~~L~~L~Ls~n~l~~~~p----  373 (968)
T PLN00113        325 -------------------------PVALTSLPRLQVLQLWSNKFSGEIPK--NLGKHNNLTVLDLSTNNLTGEIP----  373 (968)
T ss_pred             -------------------------ChhHhcCCCCCEEECcCCCCcCcCCh--HHhCCCCCcEEECCCCeeEeeCC----
Confidence                                     11123345555555555432222221  12334555555555543211111    


Q ss_pred             CcccccccccccCccceEecCCCCCccccchhhhhhhccccccccccccccccccccCCCccccccccccCCccceeccc
Q 000869          714 GDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQ  793 (1247)
Q Consensus       714 ~~~~~~~~~~~~p~L~~L~l~~~~~L~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~  793 (1247)
                            .....+++|+.|.+.+++-...++..+.                                  .+++|+.|++++
T Consensus       374 ------~~~~~~~~L~~L~l~~n~l~~~~p~~~~----------------------------------~~~~L~~L~L~~  413 (968)
T PLN00113        374 ------EGLCSSGNLFKLILFSNSLEGEIPKSLG----------------------------------ACRSLRRVRLQD  413 (968)
T ss_pred             ------hhHhCcCCCCEEECcCCEecccCCHHHh----------------------------------CCCCCCEEECcC
Confidence                  0111345566666655543322222211                                  256666666666


Q ss_pred             ccccccccccccccccCccccccEEEEccCcccccccchhHHhhhcccCeeeeccccccceeeccCCCCCCCcCceeccc
Q 000869          794 INVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPG  873 (1247)
Q Consensus       794 ~~~~~~~~~~~~~~~~~~~~~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~  873 (1247)
                      |++....+.     .+..+++|+.|++++|. ++...+ ..+..+++|+.|++++|.....++...          ..++
T Consensus       414 n~l~~~~p~-----~~~~l~~L~~L~Ls~N~-l~~~~~-~~~~~l~~L~~L~L~~n~~~~~~p~~~----------~~~~  476 (968)
T PLN00113        414 NSFSGELPS-----EFTKLPLVYFLDISNNN-LQGRIN-SRKWDMPSLQMLSLARNKFFGGLPDSF----------GSKR  476 (968)
T ss_pred             CEeeeECCh-----hHhcCCCCCEEECcCCc-ccCccC-hhhccCCCCcEEECcCceeeeecCccc----------cccc
Confidence            655432211     22345667777776643 443323 234456777777777776443333211          2356


Q ss_pred             cCceecccCCccccccCCCCcCCCCCccEEEEecCCcceeccccccccccccccccCCCccccccccccccccccceeec
Q 000869          874 LTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGL  953 (1247)
Q Consensus       874 L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~L~~L~l  953 (1247)
                      |+.|++++|.-....+..  ...+++|+.|++++|.-....|...                        ..+++|++|++
T Consensus       477 L~~L~ls~n~l~~~~~~~--~~~l~~L~~L~Ls~N~l~~~~p~~~------------------------~~l~~L~~L~L  530 (968)
T PLN00113        477 LENLDLSRNQFSGAVPRK--LGSLSELMQLKLSENKLSGEIPDEL------------------------SSCKKLVSLDL  530 (968)
T ss_pred             ceEEECcCCccCCccChh--hhhhhccCEEECcCCcceeeCChHH------------------------cCccCCCEEEC
Confidence            777777766433333321  1235777888887764433333211                        13677888888


Q ss_pred             cccCcccccccCCCccccccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcceeecc
Q 000869          954 NGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSN 1016 (1247)
Q Consensus       954 ~~~~l~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l~~~~~ 1016 (1247)
                      ++|.+.......+.  .+++|+.|++++|.....+  +..+..+++|+.|++++|+-...+|.
T Consensus       531 s~N~l~~~~p~~~~--~l~~L~~L~Ls~N~l~~~~--p~~l~~l~~L~~l~ls~N~l~~~~p~  589 (968)
T PLN00113        531 SHNQLSGQIPASFS--EMPVLSQLDLSQNQLSGEI--PKNLGNVESLVQVNISHNHLHGSLPS  589 (968)
T ss_pred             CCCcccccCChhHh--CcccCCEEECCCCcccccC--ChhHhcCcccCEEeccCCcceeeCCC
Confidence            88777655443332  3678888888888765544  34566788888888888775555554

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=99.97  E-value=1.5e-30  Score=339.01  Aligned_cols=153  Identities=20%  Similarity=0.255  Sum_probs=127.1

Q ss_pred             CCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCc-cCCcccc-cCCCCcEEEccCcCCCCcccccCCCCCcEE
Q 000869          344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSID-HLLNLQTLCLDQCILGDVAIIGKLKNLEIL  421 (1247)
Q Consensus       344 ~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~lp~~l~-~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L  421 (1247)
                      .+++.|++++|.+....   ...|..+++|++|+|++|.+. .+|..+. .+++|++|+|++|.+......+.+++|++|
T Consensus        69 ~~v~~L~L~~~~i~~~~---~~~~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L  145 (968)
T PLN00113         69 SRVVSIDLSGKNISGKI---SSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETL  145 (968)
T ss_pred             CcEEEEEecCCCccccC---ChHHhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCccccCCCCEE
Confidence            47899999999887544   456789999999999999997 7887765 999999999999998765445779999999


Q ss_pred             EccCCCCC-cCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCC
Q 000869          422 SFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPR  500 (1247)
Q Consensus       422 ~L~~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  500 (1247)
                      ++++|.+. .+|..++++++|++|++++| .+....|..++++++|++|++++|.+.           ...+..++++++
T Consensus       146 ~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n-~l~~~~p~~~~~l~~L~~L~L~~n~l~-----------~~~p~~l~~l~~  213 (968)
T PLN00113        146 DLSNNMLSGEIPNDIGSFSSLKVLDLGGN-VLVGKIPNSLTNLTSLEFLTLASNQLV-----------GQIPRELGQMKS  213 (968)
T ss_pred             ECcCCcccccCChHHhcCCCCCEEECccC-cccccCChhhhhCcCCCeeeccCCCCc-----------CcCChHHcCcCC
Confidence            99999887 78999999999999999999 565555667999999999999998664           335567778888


Q ss_pred             CcEEEEeecCC
Q 000869          501 LTTLEVHVKND  511 (1247)
Q Consensus       501 L~~L~l~~~~~  511 (1247)
                      |+.|+++.|..
T Consensus       214 L~~L~L~~n~l  224 (968)
T PLN00113        214 LKWIYLGYNNL  224 (968)
T ss_pred             ccEEECcCCcc
Confidence            88888776544

>PLN03210 Resistant to P

Probab=99.87  E-value=4.1e-21  Score=248.90  Aligned_cols=296  Identities=19%  Similarity=0.237  Sum_probs=180.7

Q ss_pred             cCCccceecccccccccccccccccccCccccccEEEEccCcccccccchhHHhhhcccCeeeeccccccceeeccCCCC
Q 000869          783 FPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTD  862 (1247)
Q Consensus       783 ~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~  862 (1247)
                      +.+|++|++.++.+..+|.+.      ..+++|+.|++++|..++.++.   +..+++|+.|++++|..+..++...+  
T Consensus       610 ~~~L~~L~L~~s~l~~L~~~~------~~l~~Lk~L~Ls~~~~l~~ip~---ls~l~~Le~L~L~~c~~L~~lp~si~--  678 (1153)
T PLN03210        610 PENLVKLQMQGSKLEKLWDGV------HSLTGLRNIDLRGSKNLKEIPD---LSMATNLETLKLSDCSSLVELPSSIQ--  678 (1153)
T ss_pred             ccCCcEEECcCcccccccccc------ccCCCCCEEECCCCCCcCcCCc---cccCCcccEEEecCCCCccccchhhh--
Confidence            678888999888888888643      2577899999988888877643   56788899999999988877765322  


Q ss_pred             CCCcCceeccccCceecccCCccccccCCCCcCCCCCccEEEEecCCcceeccccccccccccccccCCCcccccccccc
Q 000869          863 DQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLE  942 (1247)
Q Consensus       863 ~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~~~~~~~L~~L~i~~C~~L~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~  942 (1247)
                             .+++|+.|.+.+|.+++.+|...   .+++|+.|++++|..+..+|..                         
T Consensus       679 -------~L~~L~~L~L~~c~~L~~Lp~~i---~l~sL~~L~Lsgc~~L~~~p~~-------------------------  723 (1153)
T PLN03210        679 -------YLNKLEDLDMSRCENLEILPTGI---NLKSLYRLNLSGCSRLKSFPDI-------------------------  723 (1153)
T ss_pred             -------ccCCCCEEeCCCCCCcCccCCcC---CCCCCCEEeCCCCCCccccccc-------------------------
Confidence                   57888999999998888887643   4688999999999888766531                         


Q ss_pred             ccccccceeeccccCcccccccCCCccccccccEEEEecCCCcccc-----cchHHHhhcCCccEEEecCCCcceeeccC
Q 000869          943 KVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAG-----FPLGLLERFNNLEKLRLDGCSCKEILSND 1017 (1247)
Q Consensus       943 ~~~~~L~~L~l~~~~l~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~-----~~~~~l~~l~~L~~L~i~~c~~l~~~~~~ 1017 (1247)
                        .++|++|+++++.+..++..    ..+++|++|.+.+|....-.     .+......+++|+.|++++|+.+.+++..
T Consensus       724 --~~nL~~L~L~~n~i~~lP~~----~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~s  797 (1153)
T PLN03210        724 --STNISWLDLDETAIEEFPSN----LRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSS  797 (1153)
T ss_pred             --cCCcCeeecCCCcccccccc----ccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChh
Confidence              34566666666666555432    12455666666554321100     00111122345666666666555544332


Q ss_pred             CCcccccccccccceeeecccccchhhhccCCccccccccccEEEEecCCccccccCCccccccCccEEEEccccCchhc
Q 000869         1018 GHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINL 1097 (1247)
Q Consensus      1018 ~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~i~~c~~l~~l~p~~~~~~~~L~~L~i~~C~~l~~~ 1097 (1247)
                            ...+++|+.|+|.+|.+++.+    |... .+++|++|++++|..+..+ |.   ..++|+.|++++ ++++.+
T Consensus       798 ------i~~L~~L~~L~Ls~C~~L~~L----P~~~-~L~sL~~L~Ls~c~~L~~~-p~---~~~nL~~L~Ls~-n~i~~i  861 (1153)
T PLN03210        798 ------IQNLHKLEHLEIENCINLETL----PTGI-NLESLESLDLSGCSRLRTF-PD---ISTNISDLNLSR-TGIEEV  861 (1153)
T ss_pred             ------hhCCCCCCEEECCCCCCcCee----CCCC-CccccCEEECCCCCccccc-cc---cccccCEeECCC-CCCccC
Confidence                  123556666666666666555    3332 4556666666666665544 43   234566666655 345555


Q ss_pred             chhhHHhhhcccceEEEcccccceeeeccccccccccceeecccceeecccCCCcceec
Q 000869         1098 VASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKLKRLSLVDLDSLASFC 1156 (1247)
Q Consensus      1098 ~~~~~~~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~l~ 1156 (1247)
                      |.  ....+++|+.|++++|.++..++.....        +++|+.|.+.+|++|+.++
T Consensus       862 P~--si~~l~~L~~L~L~~C~~L~~l~~~~~~--------L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        862 PW--WIEKFSNLSFLDMNGCNNLQRVSLNISK--------LKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             hH--HHhcCCCCCEEECCCCCCcCccCccccc--------ccCCCeeecCCCccccccc
Confidence            42  2455566666666666666555443222        5566666666666665443

syringae 6; Provisional

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=99.86  E-value=5.9e-22  Score=213.14  Aligned_cols=196  Identities=18%  Similarity=0.258  Sum_probs=150.1

Q ss_pred             cceEEEccCCccccccC----cCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcE
Q 000869          323 KCYAISIRDSSIHELLE----GLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQT  398 (1247)
Q Consensus       323 ~~~~l~l~~~~i~~~~~----~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~  398 (1247)
                      +.+-++...+.+..+..    +.-.+..++|++++|.+.   ++...+|.++++|+.+++.+|.++.+|.......||+.
T Consensus        53 ~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNkl~---~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~  129 (873)
T KOG4194|consen   53 NTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNKLS---HIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEK  129 (873)
T ss_pred             CceeeecCccccccccccccCCcCccceeeeeccccccc---cCcHHHHhcCCcceeeeeccchhhhcccccccccceeE
Confidence            34556666666655432    224456778999999888   55677889999999999999999999987778888999


Q ss_pred             EEccCcCCCCc--ccccCCCCCcEEEccCCCCCcCch-hhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCc
Q 000869          399 LCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPE-ELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF  475 (1247)
Q Consensus       399 L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~  475 (1247)
                      |+|.+|.|..+  ..+.-++.||.||||.|.|.++|. +|..-.++++|+|++| .++.+..+.|..+.+|-+|.++.|.
T Consensus       130 L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N-~It~l~~~~F~~lnsL~tlkLsrNr  208 (873)
T KOG4194|consen  130 LDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASN-RITTLETGHFDSLNSLLTLKLSRNR  208 (873)
T ss_pred             EeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccc-cccccccccccccchheeeecccCc
Confidence            99999999888  678899999999999999998874 4666688999999999 8888888889999999999999988


Q ss_pred             cccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchh--hccccceeeEEecCc
Q 000869          476 VEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF--FARKLERFKISVGEA  533 (1247)
Q Consensus       476 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~l~i~~~~l  533 (1247)
                      +.           .-.+..+++|++|+.|++..|.+..+....  ++++|+.+.+..|++
T Consensus       209 it-----------tLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I  257 (873)
T KOG4194|consen  209 IT-----------TLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDI  257 (873)
T ss_pred             cc-----------ccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCc
Confidence            76           234467788999999998887765432111  344444444444443

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=99.84  E-value=8.9e-22  Score=211.80  Aligned_cols=318  Identities=21%  Similarity=0.324  Sum_probs=225.0

Q ss_pred             hcccceEEEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCC-cccccCCCCc
Q 000869          320 ALRKCYAISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLP-PSIDHLLNLQ  397 (1247)
Q Consensus       320 ~~~~~~~l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~l~~l~~L~  397 (1247)
                      .+.+++.+++..|.++.+|... ...+|+.|+|.+|.+.   .+..+.++.++.||+||||.|.|..+| ++|..-.+++
T Consensus       100 nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~---sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~  176 (873)
T KOG4194|consen  100 NLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLIS---SVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIK  176 (873)
T ss_pred             cCCcceeeeeccchhhhcccccccccceeEEeeeccccc---cccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCce
Confidence            4667888888888888888877 4556888888888887   456666788888888888888888775 3566667888


Q ss_pred             EEEccCcCCCCc--ccccCCCCCcEEEccCCCCCcCch-hhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecC
Q 000869          398 TLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPE-ELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC  474 (1247)
Q Consensus       398 ~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~  474 (1247)
                      +|+|++|.|+.+  ..|..|.+|-+|.|+.|.|+.+|. .|.+|++|+.|+|..| .++......|..|.+|+.|.+..|
T Consensus       177 ~L~La~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN-~irive~ltFqgL~Sl~nlklqrN  255 (873)
T KOG4194|consen  177 KLNLASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRN-RIRIVEGLTFQGLPSLQNLKLQRN  255 (873)
T ss_pred             EEeeccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhcccc-ceeeehhhhhcCchhhhhhhhhhc
Confidence            888888888877  678888888888888888888874 5666888888888888 677665666888888888888888


Q ss_pred             ccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchh--hccccceeeEEecCccccCCCCcCccccccccCC
Q 000869          475 FVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF--FARKLERFKISVGEAAFLPFGATSNDACFRLSWP  552 (1247)
Q Consensus       475 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~--~~~~L~~l~i~~~~l~~~~~~~~~~~~~~~~~~~  552 (1247)
                      .+....+           ..+-.+.++++|++..|.+..+.++.  +++.|+.|+++.|.+..+..++          | 
T Consensus       256 ~I~kL~D-----------G~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~----------W-  313 (873)
T KOG4194|consen  256 DISKLDD-----------GAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDS----------W-  313 (873)
T ss_pred             CcccccC-----------cceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecch----------h-
Confidence            7663332           34556778888888888877766654  7888888888888876665442          3 


Q ss_pred             cccccccccceeeeeccCc-ccccccccccccceeEEeeccccCcchhhhcccccCcCCCcEEEeecCCCceeeccCCCc
Q 000869          553 LFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMER  631 (1247)
Q Consensus       553 ~~~~~~~~~l~~L~l~~~~-~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~L~~L~l~~~~~~~~i~~~~~~  631 (1247)
                          .-.+.|+.|+++.|. .......+..++.|+.|.|+... ++.+. +....++.+|++|++..+.--..|.+..  
T Consensus       314 ----sftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Ns-i~~l~-e~af~~lssL~~LdLr~N~ls~~IEDaa--  385 (873)
T KOG4194|consen  314 ----SFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNS-IDHLA-EGAFVGLSSLHKLDLRSNELSWCIEDAA--  385 (873)
T ss_pred             ----hhcccceeEeccccccccCChhHHHHHHHhhhhcccccc-hHHHH-hhHHHHhhhhhhhcCcCCeEEEEEecch--
Confidence                455778888888877 55666677888888888887643 22221 2122456788888887775444443221  


Q ss_pred             CccCCcccccceecccccccccccccCccccccccccceEEEec
Q 000869          632 VPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEH  675 (1247)
Q Consensus       632 ~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~  675 (1247)
                       .....+++|+.|.+.+. +++.++..  .+..|++|+.|++.+
T Consensus       386 -~~f~gl~~LrkL~l~gN-qlk~I~kr--Afsgl~~LE~LdL~~  425 (873)
T KOG4194|consen  386 -VAFNGLPSLRKLRLTGN-QLKSIPKR--AFSGLEALEHLDLGD  425 (873)
T ss_pred             -hhhccchhhhheeecCc-eeeecchh--hhccCcccceecCCC
Confidence             12234667777776664 34444322  244566666666666

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=99.83  E-value=1.5e-23  Score=215.46  Aligned_cols=260  Identities=26%  Similarity=0.344  Sum_probs=179.5

Q ss_pred             ceEEEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEcc
Q 000869          324 CYAISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD  402 (1247)
Q Consensus       324 ~~~l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~  402 (1247)
                      +..+.+.+|.+..+.+.. .+..+.+|.+++|...   ++|+.+ +++..+..|+.++|.+..+|+.++.+..|+.|+.+
T Consensus        47 l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n~l~---~lp~ai-g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s  122 (565)
T KOG0472|consen   47 LQKLILSHNDLEVLREDLKNLACLTVLNVHDNKLS---QLPAAI-GELEALKSLNVSHNKLSELPEQIGSLISLVKLDCS  122 (565)
T ss_pred             hhhhhhccCchhhccHhhhcccceeEEEeccchhh---hCCHHH-HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhcc
Confidence            455667777776665544 6777778888887776   556655 67777777888888888888888888888888888


Q ss_pred             CcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccC
Q 000869          403 QCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDE  481 (1247)
Q Consensus       403 ~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~  481 (1247)
                      +|.+..+ ++++.+..|..|+..+|++..+|.+++++..|..|++.+| .++.+++..+. ++.|++|+...|-..    
T Consensus       123 ~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n-~l~~l~~~~i~-m~~L~~ld~~~N~L~----  196 (565)
T KOG0472|consen  123 SNELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGN-KLKALPENHIA-MKRLKHLDCNSNLLE----  196 (565)
T ss_pred             ccceeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhcccc-chhhCCHHHHH-HHHHHhcccchhhhh----
Confidence            7777665 7777888888888888888888888888777888888777 67777776555 777888777655443    


Q ss_pred             CCCcccccccccccCCCCCCcEEEEeecCCCCCCchhhccccceeeEEecCccccCCCCcCccccccccCCccccccccc
Q 000869          482 GPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSET  561 (1247)
Q Consensus       482 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~l~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  561 (1247)
                              ..+.+++.+.+|..|+++.|.+..+|+.-+...|..|.+..|.++.++....               +++.+
T Consensus       197 --------tlP~~lg~l~~L~~LyL~~Nki~~lPef~gcs~L~Elh~g~N~i~~lpae~~---------------~~L~~  253 (565)
T KOG0472|consen  197 --------TLPPELGGLESLELLYLRRNKIRFLPEFPGCSLLKELHVGENQIEMLPAEHL---------------KHLNS  253 (565)
T ss_pred             --------cCChhhcchhhhHHHHhhhcccccCCCCCccHHHHHHHhcccHHHhhHHHHh---------------ccccc
Confidence                    5667777777777777777777777755567777777776666555543322               45666


Q ss_pred             ceeeeeccCcccccccccccccceeEEeeccccCcchhhhcccccCcCCCcEEEeecCC
Q 000869          562 LRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNP  620 (1247)
Q Consensus       562 l~~L~l~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~L~~L~l~~~~  620 (1247)
                      +..|++.-|+....+..+.-+.+|++|++++.. +......+  +.+ +|+.|.+.|++
T Consensus       254 l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~-is~Lp~sL--gnl-hL~~L~leGNP  308 (565)
T KOG0472|consen  254 LLVLDLRDNKLKEVPDEICLLRSLERLDLSNND-ISSLPYSL--GNL-HLKFLALEGNP  308 (565)
T ss_pred             ceeeeccccccccCchHHHHhhhhhhhcccCCc-cccCCccc--ccc-eeeehhhcCCc
Confidence            777777766655555555666777777777633 22222222  334 67777777765

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=99.82  E-value=1.5e-22  Score=218.59  Aligned_cols=334  Identities=20%  Similarity=0.261  Sum_probs=255.1

Q ss_pred             ecCccccCCCCh-hhcccceEEEccCCccccccC-cCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCc
Q 000869          307 VRNEEVWEWPDE-DALRKCYAISIRDSSIHELLE-GLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF  384 (1247)
Q Consensus       307 ~~~~~~~~~~~~-~~~~~~~~l~l~~~~i~~~~~-~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~  384 (1247)
                      .++..+..+|.+ ..++++.|+++++|++..+.. ...+|.||.+.+..|+.... .+|.++| .++.|.+||||+|.+.
T Consensus        39 Lnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKns-GiP~diF-~l~dLt~lDLShNqL~  116 (1255)
T KOG0444|consen   39 LNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNS-GIPTDIF-RLKDLTILDLSHNQLR  116 (1255)
T ss_pred             echhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccC-CCCchhc-ccccceeeecchhhhh
Confidence            445556666654 357889999999999887765 45899999999999988755 4688886 7999999999999999


Q ss_pred             cCCcccccCCCCcEEEccCcCCCCc--ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcC
Q 000869          385 SLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISS  462 (1247)
Q Consensus       385 ~lp~~l~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~  462 (1247)
                      +.|..+...+++-+|+|++|+|+.+  +.+-+|..|-+||||+|.+..+|..+..|.+|++|+|++| -+..+.-..+-.
T Consensus       117 EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~N-PL~hfQLrQLPs  195 (1255)
T KOG0444|consen  117 EVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNN-PLNHFQLRQLPS  195 (1255)
T ss_pred             hcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCC-hhhHHHHhcCcc
Confidence            9999999999999999999999887  6688999999999999999999999999999999999998 454443344556


Q ss_pred             CCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchh-hccccceeeEEecCccccCCCCc
Q 000869          463 LIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF-FARKLERFKISVGEAAFLPFGAT  541 (1247)
Q Consensus       463 L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~l~i~~~~l~~~~~~~~  541 (1247)
                      |++|++|.+++..-.          ....+..+..+.+|+.++++.|+...+|..+ .+.+|+.|++++|.++.+.... 
T Consensus       196 mtsL~vLhms~TqRT----------l~N~Ptsld~l~NL~dvDlS~N~Lp~vPecly~l~~LrrLNLS~N~iteL~~~~-  264 (1255)
T KOG0444|consen  196 MTSLSVLHMSNTQRT----------LDNIPTSLDDLHNLRDVDLSENNLPIVPECLYKLRNLRRLNLSGNKITELNMTE-  264 (1255)
T ss_pred             chhhhhhhcccccch----------hhcCCCchhhhhhhhhccccccCCCcchHHHhhhhhhheeccCcCceeeeeccH-
Confidence            788899998876433          3456778889999999999999999999877 8899999999999987765431 


Q ss_pred             CccccccccCCcccccccccceeeeeccCcccccccccccccceeEEeeccccCcchhhhcccccCcCCCcEEEeecCCC
Q 000869          542 SNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPD  621 (1247)
Q Consensus       542 ~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~L~~L~l~~~~~  621 (1247)
                                     +.-.++++|.++.|+....+..+..++.|+.|...+.+..-+.+|. ..+.+.+|+.+...++ .
T Consensus       265 ---------------~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~NkL~FeGiPS-GIGKL~~Levf~aanN-~  327 (1255)
T KOG0444|consen  265 ---------------GEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNNKLTFEGIPS-GIGKLIQLEVFHAANN-K  327 (1255)
T ss_pred             ---------------HHHhhhhhhccccchhccchHHHhhhHHHHHHHhccCcccccCCcc-chhhhhhhHHHHhhcc-c
Confidence                           4456889999999887777888888999998888765432222221 1244567777776665 3


Q ss_pred             ceeeccCCCcCccCCcccccceecccccccccccccCccccccccccceEEEeccCCCcc
Q 000869          622 FMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSN  681 (1247)
Q Consensus       622 ~~~i~~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~l~~L~~L~l~~c~~l~~  681 (1247)
                      ++-++.      +...++.|+.|.+.+..-+ .+   +....-++.|+.|++...+++.-
T Consensus       328 LElVPE------glcRC~kL~kL~L~~NrLi-TL---PeaIHlL~~l~vLDlreNpnLVM  377 (1255)
T KOG0444|consen  328 LELVPE------GLCRCVKLQKLKLDHNRLI-TL---PEAIHLLPDLKVLDLRENPNLVM  377 (1255)
T ss_pred             cccCch------hhhhhHHHHHhccccccee-ec---hhhhhhcCCcceeeccCCcCccC
Confidence            333321      3345567777776554322 11   22234567777777777776653

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=99.81  E-value=1.7e-21  Score=221.93  Aligned_cols=143  Identities=28%  Similarity=0.368  Sum_probs=118.1

Q ss_pred             EEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcC
Q 000869          327 ISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCI  405 (1247)
Q Consensus       327 l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~  405 (1247)
                      +++++.+.+.||..+ ....+..|++..|...   ..|-++..+.-+|+.|++++|.+..+|..+..+.+|+.|+++.|.
T Consensus         3 vd~s~~~l~~ip~~i~~~~~~~~ln~~~N~~l---~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~   79 (1081)
T KOG0618|consen    3 VDASDEQLELIPEQILNNEALQILNLRRNSLL---SRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNY   79 (1081)
T ss_pred             cccccccCcccchhhccHHHHHhhhccccccc---cCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchhh
Confidence            445556666666544 4445888888888665   445566677777999999999999999999999999999999999


Q ss_pred             CCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecC
Q 000869          406 LGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC  474 (1247)
Q Consensus       406 l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~  474 (1247)
                      +..+ .+.+++.+|++|.|.+|.+..+|.++..+++|++|++++| ....+| ..+..+..+..+..++|
T Consensus        80 i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~N-~f~~~P-l~i~~lt~~~~~~~s~N  147 (1081)
T KOG0618|consen   80 IRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSFN-HFGPIP-LVIEVLTAEEELAASNN  147 (1081)
T ss_pred             HhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccchh-ccCCCc-hhHHhhhHHHHHhhhcc
Confidence            8776 7889999999999999999999999999999999999999 677774 44788888888888877

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=99.78  E-value=2.2e-22  Score=206.95  Aligned_cols=176  Identities=23%  Similarity=0.362  Sum_probs=151.7

Q ss_pred             CCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-ccccCCCCCcEEE
Q 000869          344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILS  422 (1247)
Q Consensus       344 ~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~  422 (1247)
                      -.++.+++++|...   .+.++. .++..|.+|++.+|...++|++++.+..++.|+.++|++..+ +.++.+..|+.|+
T Consensus        45 v~l~~lils~N~l~---~l~~dl-~nL~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~  120 (565)
T KOG0472|consen   45 VDLQKLILSHNDLE---VLREDL-KNLACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLD  120 (565)
T ss_pred             cchhhhhhccCchh---hccHhh-hcccceeEEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhh
Confidence            45778899999887   334444 899999999999999999999999999999999999998876 8899999999999


Q ss_pred             ccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCc
Q 000869          423 FSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLT  502 (1247)
Q Consensus       423 L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~  502 (1247)
                      .++|.+.++|++|+.+..|..|+..+| ++...|++ +.++.+|..|++.+|.+.            +.+.+.-.++.|+
T Consensus       121 ~s~n~~~el~~~i~~~~~l~dl~~~~N-~i~slp~~-~~~~~~l~~l~~~~n~l~------------~l~~~~i~m~~L~  186 (565)
T KOG0472|consen  121 CSSNELKELPDSIGRLLDLEDLDATNN-QISSLPED-MVNLSKLSKLDLEGNKLK------------ALPENHIAMKRLK  186 (565)
T ss_pred             ccccceeecCchHHHHhhhhhhhcccc-ccccCchH-HHHHHHHHHhhccccchh------------hCCHHHHHHHHHH
Confidence            999999999999999999999999998 88888655 888999999999888765            4445555588999


Q ss_pred             EEEEeecCCCCCCchh-hccccceeeEEecCccccC
Q 000869          503 TLEVHVKNDNILPEGF-FARKLERFKISVGEAAFLP  537 (1247)
Q Consensus       503 ~L~l~~~~~~~~~~~~-~~~~L~~l~i~~~~l~~~~  537 (1247)
                      +|+...|-...+|..+ .+.+|+.|.+..|++.++|
T Consensus       187 ~ld~~~N~L~tlP~~lg~l~~L~~LyL~~Nki~~lP  222 (565)
T KOG0472|consen  187 HLDCNSNLLETLPPELGGLESLELLYLRRNKIRFLP  222 (565)
T ss_pred             hcccchhhhhcCChhhcchhhhHHHHhhhcccccCC
Confidence            9999999999999888 7788888888888766554

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=99.77  E-value=1.1e-20  Score=215.26  Aligned_cols=130  Identities=25%  Similarity=0.341  Sum_probs=72.6

Q ss_pred             cccccceeeccccCcccccccCCCccccccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcceeeccCCCcccc
Q 000869          944 VFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKH 1023 (1247)
Q Consensus       944 ~~~~L~~L~l~~~~l~~~~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l~~~~~~~~~~~~ 1023 (1247)
                      ..+.|++|++-+|.+.+-.-.  +...+..||.|+++++.--+  +|...+.++..|++|+++| ++++.++..-     
T Consensus       357 ~~~~Lq~LylanN~Ltd~c~p--~l~~~~hLKVLhLsyNrL~~--fpas~~~kle~LeeL~LSG-NkL~~Lp~tv-----  426 (1081)
T KOG0618|consen  357 NHAALQELYLANNHLTDSCFP--VLVNFKHLKVLHLSYNRLNS--FPASKLRKLEELEELNLSG-NKLTTLPDTV-----  426 (1081)
T ss_pred             hhHHHHHHHHhcCcccccchh--hhccccceeeeeeccccccc--CCHHHHhchHHhHHHhccc-chhhhhhHHH-----
Confidence            466788888888777654321  23446788888887775222  4777788888888888887 4566554321     


Q ss_pred             cccccccceeeecccccchhhhccCCccccccccccEEEEecCCccccc-cCCccccccCccEEEEcccc
Q 000869         1024 GGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLIL-LPSSSVSFWNLTSLEVSSCK 1092 (1247)
Q Consensus      1024 ~~~~~~L~~L~l~~c~~l~~l~~~~~~~~~~l~~L~~L~i~~c~~l~~l-~p~~~~~~~~L~~L~i~~C~ 1092 (1247)
                       ..+..|++|...+ +.+.++    | .+..++.|+.++++ |+.|..+ +|. ...-++|++|++++..
T Consensus       427 -a~~~~L~tL~ahs-N~l~~f----P-e~~~l~qL~~lDlS-~N~L~~~~l~~-~~p~p~LkyLdlSGN~  487 (1081)
T KOG0618|consen  427 -ANLGRLHTLRAHS-NQLLSF----P-ELAQLPQLKVLDLS-CNNLSEVTLPE-ALPSPNLKYLDLSGNT  487 (1081)
T ss_pred             -HhhhhhHHHhhcC-Cceeec----h-hhhhcCcceEEecc-cchhhhhhhhh-hCCCcccceeeccCCc
Confidence             2355555554433 223333    3 44555666666663 3444322 222 1111456666666544

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=99.77  E-value=2.1e-20  Score=202.33  Aligned_cols=174  Identities=19%  Similarity=0.242  Sum_probs=138.9

Q ss_pred             CCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-ccccCCCCCcEE
Q 000869          343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEIL  421 (1247)
Q Consensus       343 ~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L  421 (1247)
                      ++-.|-.++++|.+++.. .|.+. ..|..++.|.|..+.+..+|+.++.+.+|+.|.+.+|++..+ ..++.|+.||.+
T Consensus         6 LpFVrGvDfsgNDFsg~~-FP~~v-~qMt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv   83 (1255)
T KOG0444|consen    6 LPFVRGVDFSGNDFSGDR-FPHDV-EQMTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSV   83 (1255)
T ss_pred             cceeecccccCCcCCCCc-CchhH-HHhhheeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHH
Confidence            456677888888877442 25544 889999999999999999999999999999999999988777 788889999999


Q ss_pred             EccCCCCC--cCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccc-cccCCC
Q 000869          422 SFSGSGIV--KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRL-DELMHL  498 (1247)
Q Consensus       422 ~L~~~~i~--~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~-~~l~~l  498 (1247)
                      +++.|+++  .+|..|-+|..|.+||||+| +++..| ..+..-+++-+|++++|.+..            .+ .-+.+|
T Consensus        84 ~~R~N~LKnsGiP~diF~l~dLt~lDLShN-qL~EvP-~~LE~AKn~iVLNLS~N~Iet------------IPn~lfinL  149 (1255)
T KOG0444|consen   84 IVRDNNLKNSGIPTDIFRLKDLTILDLSHN-QLREVP-TNLEYAKNSIVLNLSYNNIET------------IPNSLFINL  149 (1255)
T ss_pred             hhhccccccCCCCchhcccccceeeecchh-hhhhcc-hhhhhhcCcEEEEcccCcccc------------CCchHHHhh
Confidence            99999876  78999999999999999998 888885 448888888899998887762            22 234577


Q ss_pred             CCCcEEEEeecCCCCCCchh-hccccceeeEEecC
Q 000869          499 PRLTTLEVHVKNDNILPEGF-FARKLERFKISVGE  532 (1247)
Q Consensus       499 ~~L~~L~l~~~~~~~~~~~~-~~~~L~~l~i~~~~  532 (1247)
                      +.|-.|+++.|....+|+.+ .+.+|++|.+++|.
T Consensus       150 tDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NP  184 (1255)
T KOG0444|consen  150 TDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNP  184 (1255)
T ss_pred             HhHhhhccccchhhhcCHHHHHHhhhhhhhcCCCh
Confidence            77888888888888887766 66677777666555

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.57  E-value=5.8e-17  Score=147.23  Aligned_cols=167  Identities=25%  Similarity=0.353  Sum_probs=125.3

Q ss_pred             cccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-ccc
Q 000869          334 IHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AII  412 (1247)
Q Consensus       334 i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~~~  412 (1247)
                      +.+++..+.+++++.|.+++|.+.   .+|+.+ ..+++|++|++++|+|.++|.+++.++.||.|++.-|++..+ ..|
T Consensus        23 f~~~~gLf~~s~ITrLtLSHNKl~---~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgf   98 (264)
T KOG0617|consen   23 FEELPGLFNMSNITRLTLSHNKLT---VVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGF   98 (264)
T ss_pred             HhhcccccchhhhhhhhcccCcee---ecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCcccc
Confidence            345555566777777777877776   456665 778888888888888888888888888888888887776554 778


Q ss_pred             cCCCCCcEEEccCCCCC--cCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccc
Q 000869          413 GKLKNLEILSFSGSGIV--KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINS  490 (1247)
Q Consensus       413 ~~L~~L~~L~L~~~~i~--~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~  490 (1247)
                      |.++.|++|||.+|++.  .+|..|..|..|+.|+|+.| ....+|+. +++|++|+.|.+..|.+.            .
T Consensus        99 gs~p~levldltynnl~e~~lpgnff~m~tlralyl~dn-dfe~lp~d-vg~lt~lqil~lrdndll------------~  164 (264)
T KOG0617|consen   99 GSFPALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDN-DFEILPPD-VGKLTNLQILSLRDNDLL------------S  164 (264)
T ss_pred             CCCchhhhhhccccccccccCCcchhHHHHHHHHHhcCC-CcccCChh-hhhhcceeEEeeccCchh------------h
Confidence            88888888888888765  67777777778888888877 66666554 788888888888777654            4


Q ss_pred             cccccCCCCCCcEEEEeecCCCCCCchh
Q 000869          491 RLDELMHLPRLTTLEVHVKNDNILPEGF  518 (1247)
Q Consensus       491 ~~~~l~~l~~L~~L~l~~~~~~~~~~~~  518 (1247)
                      .+.+++.+++|+.|++.+|....+|..+
T Consensus       165 lpkeig~lt~lrelhiqgnrl~vlppel  192 (264)
T KOG0617|consen  165 LPKEIGDLTRLRELHIQGNRLTVLPPEL  192 (264)
T ss_pred             CcHHHHHHHHHHHHhcccceeeecChhh
Confidence            6677788888888888888777777654

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.49  E-value=6.8e-16  Score=140.35  Aligned_cols=158  Identities=22%  Similarity=0.300  Sum_probs=142.4

Q ss_pred             CCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEecc
Q 000869          369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLS  447 (1247)
Q Consensus       369 ~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~  447 (1247)
                      .+.+...|.||+|.++.+|+.|..+.+|++|++++|+++++ .+++.+++|++|++..|.+..+|.+||.++.|+.|||.
T Consensus        31 ~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p~levldlt  110 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLT  110 (264)
T ss_pred             chhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCchhhhhhcc
Confidence            67888999999999999999999999999999999999887 89999999999999999999999999999999999999


Q ss_pred             CCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchh-hcccccee
Q 000869          448 NCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF-FARKLERF  526 (1247)
Q Consensus       448 ~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~l  526 (1247)
                      +|.--....|+.|..|..|+-|+++.|.+.            ..+.+++++++|+.|.+..|..-.+|..+ .+..|+.|
T Consensus       111 ynnl~e~~lpgnff~m~tlralyl~dndfe------------~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrel  178 (264)
T KOG0617|consen  111 YNNLNENSLPGNFFYMTTLRALYLGDNDFE------------ILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLREL  178 (264)
T ss_pred             ccccccccCCcchhHHHHHHHHHhcCCCcc------------cCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHH
Confidence            983334445777888999999999988765            56788999999999999999999999998 78999999


Q ss_pred             eEEecCccccCC
Q 000869          527 KISVGEAAFLPF  538 (1247)
Q Consensus       527 ~i~~~~l~~~~~  538 (1247)
                      .|.+|.+..++.
T Consensus       179 hiqgnrl~vlpp  190 (264)
T KOG0617|consen  179 HIQGNRLTVLPP  190 (264)
T ss_pred             hcccceeeecCh
Confidence            999998877654

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=99.41  E-value=9e-15  Score=153.03  Aligned_cols=140  Identities=16%  Similarity=0.115  Sum_probs=79.4

Q ss_pred             cccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcceeeccCCCcccccccccccceeeecccccchhhhccC-C
Q 000869          971 FGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKED-S 1049 (1247)
Q Consensus       971 ~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~-~ 1049 (1247)
                      +++|+.|.+..|.+.++......-.+++.|+.+++.+|..+.+-    .+......++.|++|.++.|...++-+... .
T Consensus       319 ~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~----tL~sls~~C~~lr~lslshce~itD~gi~~l~  394 (483)
T KOG4341|consen  319 CHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDG----TLASLSRNCPRLRVLSLSHCELITDEGIRHLS  394 (483)
T ss_pred             CCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhh----hHhhhccCCchhccCChhhhhhhhhhhhhhhh
Confidence            46777777777776666533344456667777777776544421    112222346777777777776655421100 0


Q ss_pred             ccccccccccEEEEecCCccccccCCccccccCccEEEEccccCchhcchhhHHhhhcccceEEE
Q 000869         1050 QMDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQV 1114 (1247)
Q Consensus      1050 ~~~~~l~~L~~L~i~~c~~l~~l~p~~~~~~~~L~~L~i~~C~~l~~~~~~~~~~~l~~L~~L~i 1114 (1247)
                      ........|+.|.+++|+.+++-.-+....+++|+.+++.+|..++.-+...+.+++++++....
T Consensus       395 ~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~  459 (483)
T KOG4341|consen  395 SSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVTKEAISRFATHLPNIKVHAY  459 (483)
T ss_pred             hccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhhhhhhHHHHhhCccceehhh
Confidence            11233445666777777766544333355666777777777777766666666666666654443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.37  E-value=6.4e-12  Score=150.40  Aligned_cols=249  Identities=20%  Similarity=0.147  Sum_probs=172.5

Q ss_pred             ecCccccCCCChhhcccceEEEccCCccccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccC
Q 000869          307 VRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL  386 (1247)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l  386 (1247)
                      ..+..+..+|. ....+++.|++.+|.++.+|..  .++|++|++++|.+.   .+|.    ..++|+.|++++|.+..+
T Consensus       208 Ls~~~LtsLP~-~l~~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~Lt---sLP~----lp~sL~~L~Ls~N~L~~L  277 (788)
T PRK15387        208 VGESGLTTLPD-CLPAHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQLT---SLPV----LPPGLLELSIFSNPLTHL  277 (788)
T ss_pred             cCCCCCCcCCc-chhcCCCEEEccCCcCCCCCCC--CCCCcEEEecCCccC---cccC----cccccceeeccCCchhhh
Confidence            34445555554 4456889999999999988864  588999999999887   4453    246889999999999888


Q ss_pred             CcccccCCCCcEEEccCcCCCCcccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCC
Q 000869          387 PPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRL  466 (1247)
Q Consensus       387 p~~l~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L  466 (1247)
                      |...   .+|+.|++++|.++.++.  .+++|++|++++|.++.+|...   .+|+.|++++| .+..+|.  +  ..+|
T Consensus       278 p~lp---~~L~~L~Ls~N~Lt~LP~--~p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N-~L~~LP~--l--p~~L  344 (788)
T PRK15387        278 PALP---SGLCKLWIFGNQLTSLPV--LPPGLQELSVSDNQLASLPALP---SELCKLWAYNN-QLTSLPT--L--PSGL  344 (788)
T ss_pred             hhch---hhcCEEECcCCccccccc--cccccceeECCCCccccCCCCc---ccccccccccC-ccccccc--c--cccc
Confidence            7633   578889999998887743  2478999999999998887633   35778888888 7777753  1  2578


Q ss_pred             CEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchhhccccceeeEEecCccccCCCCcCcccc
Q 000869          467 EELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDAC  546 (1247)
Q Consensus       467 ~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~l~i~~~~l~~~~~~~~~~~~~  546 (1247)
                      ++|++++|.+...            +. +  ..+|+.|+++.|.+..+|..  ..+|+.|+++.|.+..++.        
T Consensus       345 q~LdLS~N~Ls~L------------P~-l--p~~L~~L~Ls~N~L~~LP~l--~~~L~~LdLs~N~Lt~LP~--------  399 (788)
T PRK15387        345 QELSVSDNQLASL------------PT-L--PSELYKLWAYNNRLTSLPAL--PSGLKELIVSGNRLTSLPV--------  399 (788)
T ss_pred             ceEecCCCccCCC------------CC-C--CcccceehhhccccccCccc--ccccceEEecCCcccCCCC--------
Confidence            9999998876511            11 1  24577778888887777653  3578888888877654431        


Q ss_pred             ccccCCcccccccccceeeeeccCcccccccccccccceeEEeeccccCcchhhhcccccCcCCCcEEEeecCC
Q 000869          547 FRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNP  620 (1247)
Q Consensus       547 ~~~~~~~~~~~~~~~l~~L~l~~~~~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~L~~L~l~~~~  620 (1247)
                                 ...+|+.|+++.|.....+.   ...+|+.|++.++. ++.+...+  ..+++|+.|++++|+
T Consensus       400 -----------l~s~L~~LdLS~N~LssIP~---l~~~L~~L~Ls~Nq-Lt~LP~sl--~~L~~L~~LdLs~N~  456 (788)
T PRK15387        400 -----------LPSELKELMVSGNRLTSLPM---LPSGLLSLSVYRNQ-LTRLPESL--IHLSSETTVNLEGNP  456 (788)
T ss_pred             -----------cccCCCEEEccCCcCCCCCc---chhhhhhhhhccCc-ccccChHH--hhccCCCeEECCCCC
Confidence                       12457778887776322111   13467778887644 33332222  357899999999886

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=99.37  E-value=5.8e-15  Score=154.42  Aligned_cols=69  Identities=12%  Similarity=-0.014  Sum_probs=38.9

Q ss_pred             cccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcceeeccCCCcccccccccccceeeecccccchh
Q 000869          971 FGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQ 1043 (1247)
Q Consensus       971 ~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~ 1043 (1247)
                      +.-+.++++..|..+++.....+...+..|+.|+.++|..+.+....    +..+.+++|+.|.+..|..+++
T Consensus       267 ~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~----aLg~~~~~L~~l~l~~c~~fsd  335 (483)
T KOG4341|consen  267 CLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLW----ALGQHCHNLQVLELSGCQQFSD  335 (483)
T ss_pred             ChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHH----HHhcCCCceEEEeccccchhhh
Confidence            44566666667777776644444555667777777777665533221    1123355566666666555444

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.34  E-value=1.5e-11  Score=147.32  Aligned_cols=173  Identities=18%  Similarity=0.172  Sum_probs=122.4

Q ss_pred             cceEEEccCCccccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEcc
Q 000869          323 KCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD  402 (1247)
Q Consensus       323 ~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~  402 (1247)
                      .-..+++..+.+..+|..+. ++|+.|++.+|.+.   .+|.    .+++|++|++++|.++.+|..   ..+|+.|+++
T Consensus       202 ~~~~LdLs~~~LtsLP~~l~-~~L~~L~L~~N~Lt---~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls  270 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDCLP-AHITTLVIPDNNLT---SLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIF  270 (788)
T ss_pred             CCcEEEcCCCCCCcCCcchh-cCCCEEEccCCcCC---CCCC----CCCCCcEEEecCCccCcccCc---ccccceeecc
Confidence            34578888888888887553 57899999998877   4453    357899999999999888753   4688889999


Q ss_pred             CcCCCCcccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCC
Q 000869          403 QCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG  482 (1247)
Q Consensus       403 ~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~  482 (1247)
                      +|.+..++.+  ..+|+.|++++|.++.+|..   +++|+.|++++| .+..++. .   ..+|+.|++.+|.+..    
T Consensus       271 ~N~L~~Lp~l--p~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N-~L~~Lp~-l---p~~L~~L~Ls~N~L~~----  336 (788)
T PRK15387        271 SNPLTHLPAL--PSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDN-QLASLPA-L---PSELCKLWAYNNQLTS----  336 (788)
T ss_pred             CCchhhhhhc--hhhcCEEECcCCcccccccc---ccccceeECCCC-ccccCCC-C---cccccccccccCcccc----
Confidence            9888776432  35788899999988888863   467899999988 7777743 1   2357778887776541    


Q ss_pred             CCcccccccccccCCCCCCcEEEEeecCCCCCCchhhccccceeeEEecCc
Q 000869          483 PNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEA  533 (1247)
Q Consensus       483 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~l~i~~~~l  533 (1247)
                              .+ .  -..+|+.|++++|.+..+|..  ..+|+.|.++.|.+
T Consensus       337 --------LP-~--lp~~Lq~LdLS~N~Ls~LP~l--p~~L~~L~Ls~N~L  374 (788)
T PRK15387        337 --------LP-T--LPSGLQELSVSDNQLASLPTL--PSELYKLWAYNNRL  374 (788)
T ss_pred             --------cc-c--cccccceEecCCCccCCCCCC--Ccccceehhhcccc
Confidence                    11 1  114688888888887776642  24555555554443

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.30  E-value=8.9e-12  Score=150.50  Aligned_cols=180  Identities=18%  Similarity=0.252  Sum_probs=95.3

Q ss_pred             cceEEEccCCccccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEcc
Q 000869          323 KCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD  402 (1247)
Q Consensus       323 ~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~  402 (1247)
                      +...+.+.++.+..+|..+ .++|+.|++++|.+.   .+|..++   .+|++|++++|.++.+|..+.  .+|+.|+|+
T Consensus       179 ~~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~Lt---sLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls  249 (754)
T PRK15370        179 NKTELRLKILGLTTIPACI-PEQITTLILDNNELK---SLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELS  249 (754)
T ss_pred             CceEEEeCCCCcCcCCccc-ccCCcEEEecCCCCC---cCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECc
Confidence            3455666666666665433 245666666666655   3455443   356666666666666665443  356666666


Q ss_pred             CcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccC
Q 000869          403 QCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDE  481 (1247)
Q Consensus       403 ~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~  481 (1247)
                      +|.+..+ ..+.  .+|++|++++|.+..+|..+.  .+|++|++++| .++.+|.. +.  .+|++|++++|.+..   
T Consensus       250 ~N~L~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~-lp--~sL~~L~Ls~N~Lt~---  318 (754)
T PRK15370        250 INRITELPERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDN-SIRTLPAH-LP--SGITHLNVQSNSLTA---  318 (754)
T ss_pred             CCccCcCChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCC-ccccCccc-ch--hhHHHHHhcCCcccc---
Confidence            6666554 2222  356666666666666665443  35666666666 55555432 21  345566666554431   


Q ss_pred             CCCcccccccccccCCCCCCcEEEEeecCCCCCCchhhccccceeeEEecCcc
Q 000869          482 GPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAA  534 (1247)
Q Consensus       482 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~l~i~~~~l~  534 (1247)
                               .+..+  .++|+.|+++.|.+..+|..+. ++|+.|+++.|.+.
T Consensus       319 ---------LP~~l--~~sL~~L~Ls~N~Lt~LP~~l~-~sL~~L~Ls~N~L~  359 (754)
T PRK15370        319 ---------LPETL--PPGLKTLEAGENALTSLPASLP-PELQVLDVSKNQIT  359 (754)
T ss_pred             ---------CCccc--cccceeccccCCccccCChhhc-CcccEEECCCCCCC
Confidence                     11111  1355666666655555544332 45555555555433

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.30  E-value=1e-11  Score=150.07  Aligned_cols=197  Identities=19%  Similarity=0.275  Sum_probs=151.5

Q ss_pred             ecCccccCCCChhhcccceEEEccCCccccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccC
Q 000869          307 VRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL  386 (1247)
Q Consensus       307 ~~~~~~~~~~~~~~~~~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l  386 (1247)
                      +.+..+..+|. .+..+++.+++.+|.+..+|... .++|++|++++|.+.   .+|..+.   .+|+.|+|++|.+..+
T Consensus       185 L~~~~LtsLP~-~Ip~~L~~L~Ls~N~LtsLP~~l-~~nL~~L~Ls~N~Lt---sLP~~l~---~~L~~L~Ls~N~L~~L  256 (754)
T PRK15370        185 LKILGLTTIPA-CIPEQITTLILDNNELKSLPENL-QGNIKTLYANSNQLT---SIPATLP---DTIQEMELSINRITEL  256 (754)
T ss_pred             eCCCCcCcCCc-ccccCCcEEEecCCCCCcCChhh-ccCCCEEECCCCccc---cCChhhh---ccccEEECcCCccCcC
Confidence            33444555554 34568999999999999998765 368999999999887   4576553   4799999999999999


Q ss_pred             CcccccCCCCcEEEccCcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCC
Q 000869          387 PPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIR  465 (1247)
Q Consensus       387 p~~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~  465 (1247)
                      |..+.  .+|++|++++|.+..+ ..+.  .+|++|++++|.++.+|..+.  .+|+.|++++| .+..+|.. +  ..+
T Consensus       257 P~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~N-~Lt~LP~~-l--~~s  326 (754)
T PRK15370        257 PERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQSN-SLTALPET-L--PPG  326 (754)
T ss_pred             ChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCCccccCcccch--hhHHHHHhcCC-ccccCCcc-c--ccc
Confidence            98775  5899999999998876 3343  589999999999999987654  47999999998 78877543 3  368


Q ss_pred             CCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchhhccccceeeEEecCcccc
Q 000869          466 LEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFL  536 (1247)
Q Consensus       466 L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~L~~l~i~~~~l~~~  536 (1247)
                      |+.|++++|.+.            ..+..+  .++|+.|+++.|.+..+|..+ .+.|+.|+++.|.+..+
T Consensus       327 L~~L~Ls~N~Lt------------~LP~~l--~~sL~~L~Ls~N~L~~LP~~l-p~~L~~LdLs~N~Lt~L  382 (754)
T PRK15370        327 LKTLEAGENALT------------SLPASL--PPELQVLDVSKNQITVLPETL-PPTITTLDVSRNALTNL  382 (754)
T ss_pred             ceeccccCCccc------------cCChhh--cCcccEEECCCCCCCcCChhh-cCCcCEEECCCCcCCCC
Confidence            999999998765            122222  268999999999988777654 36788888888776544

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=99.28  E-value=3.7e-13  Score=139.75  Aligned_cols=260  Identities=22%  Similarity=0.276  Sum_probs=144.5

Q ss_pred             cccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccC-CcccccCCCCcEEEccC-cCCCCc--
Q 000869          334 IHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL-PPSIDHLLNLQTLCLDQ-CILGDV--  409 (1247)
Q Consensus       334 i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~l~~l~~L~~L~L~~-~~l~~~--  409 (1247)
                      +.++|.... +....++|+.|.++   .+|++.|+.+++||.||||+|+|+.+ |++|..+..|-.|.+.+ |+|+++  
T Consensus        58 L~eVP~~LP-~~tveirLdqN~I~---~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k  133 (498)
T KOG4237|consen   58 LTEVPANLP-PETVEIRLDQNQIS---SIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPK  133 (498)
T ss_pred             cccCcccCC-CcceEEEeccCCcc---cCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhh
Confidence            444444331 23445667777666   56777777777777777777777766 66777777766666555 667666  


Q ss_pred             ccccCCCCCcEEEccCCCCCcCc-hhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCc------cccccCC
Q 000869          410 AIIGKLKNLEILSFSGSGIVKLP-EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF------VEWEDEG  482 (1247)
Q Consensus       410 ~~~~~L~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~------~~~~~~~  482 (1247)
                      ..|++|..|+-|.+.-|.+.-++ +.+..|++|..|.+..| .+..+....+..+..++++.+..|.      +.|....
T Consensus       134 ~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn-~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~  212 (498)
T KOG4237|consen  134 GAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDN-KIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADD  212 (498)
T ss_pred             hHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccch-hhhhhccccccchhccchHhhhcCccccccccchhhhH
Confidence            56777777777777777666443 45667777777777766 5666665566666666666554333      2221100


Q ss_pred             CCcccccccccccCCC----------------------CCCcEE----EEeecCCCCCCchh--hccccceeeEEecCcc
Q 000869          483 PNSETINSRLDELMHL----------------------PRLTTL----EVHVKNDNILPEGF--FARKLERFKISVGEAA  534 (1247)
Q Consensus       483 ~~~~~~~~~~~~l~~l----------------------~~L~~L----~l~~~~~~~~~~~~--~~~~L~~l~i~~~~l~  534 (1247)
                      -     ...+.+++..                      ..++.+    .-..+.....|..-  .+++|+++++++|.++
T Consensus       213 ~-----a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~  287 (498)
T KOG4237|consen  213 L-----AMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKIT  287 (498)
T ss_pred             H-----hhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccc
Confidence            0     0000000000                      001111    00000111111111  5566777777777766


Q ss_pred             ccCCCCcCccccccccCCcccccccccceeeeeccCc-ccccccccccccceeEEeeccccCcchhhhcccccCcCCCcE
Q 000869          535 FLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKH  613 (1247)
Q Consensus       535 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~-~~~~~~~~~~l~~L~~L~L~~~~~~~~~~~~l~~~~~~~L~~  613 (1247)
                      .+..+.+               .+...++.|.+..|+ ..+....|.++..|+.|+|.+... +.+.+... .....|.+
T Consensus       288 ~i~~~aF---------------e~~a~l~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~i-t~~~~~aF-~~~~~l~~  350 (498)
T KOG4237|consen  288 RIEDGAF---------------EGAAELQELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQI-TTVAPGAF-QTLFSLST  350 (498)
T ss_pred             hhhhhhh---------------cchhhhhhhhcCcchHHHHHHHhhhccccceeeeecCCee-EEEecccc-cccceeee
Confidence            6554433               566677777777666 555666778888888888877443 22222221 33456777


Q ss_pred             EEeecCC
Q 000869          614 LHVQNNP  620 (1247)
Q Consensus       614 L~l~~~~  620 (1247)
                      |++-.++
T Consensus       351 l~l~~Np  357 (498)
T KOG4237|consen  351 LNLLSNP  357 (498)
T ss_pred             eehccCc
Confidence            7776654

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=99.23  E-value=1.1e-12  Score=136.20  Aligned_cols=270  Identities=18%  Similarity=0.204  Sum_probs=196.8

Q ss_pred             eecCccccCCCChhhcccceEEEccCCccccccCcC--CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccC-CC
Q 000869          306 VVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGL--ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCR-MQ  382 (1247)
Q Consensus       306 ~~~~~~~~~~~~~~~~~~~~~l~l~~~~i~~~~~~~--~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~-~~  382 (1247)
                      .-++..+.++|. +.......|.+..|.|+.+|+..  .+++||.|+|++|.+.   .|.++.|.+++.|..|-+.+ |.
T Consensus        52 dCr~~GL~eVP~-~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is---~I~p~AF~GL~~l~~Lvlyg~Nk  127 (498)
T KOG4237|consen   52 DCRGKGLTEVPA-NLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNIS---FIAPDAFKGLASLLSLVLYGNNK  127 (498)
T ss_pred             EccCCCcccCcc-cCCCcceEEEeccCCcccCChhhccchhhhceecccccchh---hcChHhhhhhHhhhHHHhhcCCc
Confidence            334556666664 45667889999999999999866  8999999999999999   56788999999988887777 89


Q ss_pred             CccCCc-ccccCCCCcEEEccCcCCCCc--ccccCCCCCcEEEccCCCCCcCch-hhcCCCCCcEEeccCCCCCcc----
Q 000869          383 FFSLPP-SIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPE-ELGQLTKLRHLDLSNCFKLKV----  454 (1247)
Q Consensus       383 i~~lp~-~l~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~----  454 (1247)
                      |+.+|. .|..|..|+.|.+..|.+.-+  ..+..|++|..|.+.+|.+..++. .|..+..++++.+..|..+..    
T Consensus       128 I~~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~  207 (498)
T KOG4237|consen  128 ITDLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLP  207 (498)
T ss_pred             hhhhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccc
Confidence            999975 688999999999999988776  789999999999999999998887 788899999998776642111    


Q ss_pred             -------cChhhhcCCCCCCEEEeecCccc----------cccC-----CCCcccccccccccCCCCCCcEEEEeecCCC
Q 000869          455 -------IAPNVISSLIRLEELYMSNCFVE----------WEDE-----GPNSETINSRLDELMHLPRLTTLEVHVKNDN  512 (1247)
Q Consensus       455 -------~~~~~~~~L~~L~~L~l~~~~~~----------~~~~-----~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  512 (1247)
                             ..+..++......-..+....+.          +.+.     .............++.|++|+.|++++|.+.
T Consensus       208 wla~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~  287 (498)
T KOG4237|consen  208 WLADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKIT  287 (498)
T ss_pred             hhhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccc
Confidence                   00111111111110001000000          0000     0000001122345899999999999999998


Q ss_pred             CCCchh--hccccceeeEEecCccccCCCCcCccccccccCCcccccccccceeeeeccCc-ccccccccccccceeEEe
Q 000869          513 ILPEGF--FARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLC  589 (1247)
Q Consensus       513 ~~~~~~--~~~~L~~l~i~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~l~~~~-~~~~~~~~~~l~~L~~L~  589 (1247)
                      .+.++.  ....++.|.+..|.+..+.-+.               |.+...|+.|++..|. +.+....|..+..|..|.
T Consensus       288 ~i~~~aFe~~a~l~eL~L~~N~l~~v~~~~---------------f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~  352 (498)
T KOG4237|consen  288 RIEDGAFEGAAELQELYLTRNKLEFVSSGM---------------FQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLN  352 (498)
T ss_pred             hhhhhhhcchhhhhhhhcCcchHHHHHHHh---------------hhccccceeeeecCCeeEEEecccccccceeeeee
Confidence            877665  7789999999988877665443               3778889999999998 666777999999999998


Q ss_pred             ecccc
Q 000869          590 LDKLQ  594 (1247)
Q Consensus       590 L~~~~  594 (1247)
                      +-...
T Consensus       353 l~~Np  357 (498)
T KOG4237|consen  353 LLSNP  357 (498)
T ss_pred             hccCc
Confidence            87543

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.19  E-value=3.3e-11  Score=147.98  Aligned_cols=129  Identities=23%  Similarity=0.302  Sum_probs=102.6

Q ss_pred             cCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcC--CCCc--ccccCCCCCcEEEccCC-CCCcCchhhcCCCCCc
Q 000869          368 TGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCI--LGDV--AIIGKLKNLEILSFSGS-GIVKLPEELGQLTKLR  442 (1247)
Q Consensus       368 ~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~--l~~~--~~~~~L~~L~~L~L~~~-~i~~lp~~i~~L~~L~  442 (1247)
                      ......|...+-+|.+..++.+.. .+.|++|-+.++.  +..+  ..|..+++|++|||++| .+.++|.+|+.|.|||
T Consensus       520 ~~~~~~rr~s~~~~~~~~~~~~~~-~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~Lr  598 (889)
T KOG4658|consen  520 KSWNSVRRMSLMNNKIEHIAGSSE-NPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLR  598 (889)
T ss_pred             cchhheeEEEEeccchhhccCCCC-CCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhh
Confidence            345678888888998887776544 3479999999986  5555  44889999999999988 7889999999999999


Q ss_pred             EEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecC
Q 000869          443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKN  510 (1247)
Q Consensus       443 ~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  510 (1247)
                      +|+++++ .++.+|. .+++|+.|.+|++..+...           ...+..+..|++|++|.+....
T Consensus       599 yL~L~~t-~I~~LP~-~l~~Lk~L~~Lnl~~~~~l-----------~~~~~i~~~L~~Lr~L~l~~s~  653 (889)
T KOG4658|consen  599 YLDLSDT-GISHLPS-GLGNLKKLIYLNLEVTGRL-----------ESIPGILLELQSLRVLRLPRSA  653 (889)
T ss_pred             cccccCC-Cccccch-HHHHHHhhheecccccccc-----------ccccchhhhcccccEEEeeccc
Confidence            9999998 8999865 4999999999999876433           1123445558889998886543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.15  E-value=2.5e-09  Score=139.57  Aligned_cols=264  Identities=16%  Similarity=0.217  Sum_probs=164.6

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCccc--------------cchHHHHHHHH
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVLQE--------------ETESSRASRLH   65 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~~--------------~~~~~~~~~~~   65 (1247)
                      .+|.||||++.+++++      ++.++|+++... .+...+...++..++.....              .........+.
T Consensus        40 paG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  113 (903)
T PRK04841         40 PAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYASLSSLFAQLF  113 (903)
T ss_pred             CCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHH
Confidence            3799999999998853      336999999744 45555666666555311110              11122233444


Q ss_pred             HHHhc-CCeEEEEEeCCCCccc--c-hhhccCCCCCCCCcEEEEecCChhhhh--hc-CCcceEEcC----CCCHHHHHH
Q 000869           66 EQLKR-EEKILIILDNIWKRVD--L-ETVGIPFGDDHRGCKLLLTARDRTVLF--SM-GSEKNFLVD----ILKEEEAWR  134 (1247)
Q Consensus        66 ~~l~~-~~~~LlvlDd~~~~~~--~-~~l~~~~~~~~~~~~vliTtR~~~~~~--~~-~~~~~~~l~----~l~~~ea~~  134 (1247)
                      ..+.. +.+++||+||++...+  . +.+...+.....+.++|||||......  .. ......+++    +|+.+|+.+
T Consensus       114 ~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~  193 (903)
T PRK04841        114 IELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQ  193 (903)
T ss_pred             HHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHH
Confidence            44443 6899999999987532  1 122222222345677889999853221  11 122345566    899999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHHHHHHhcCChhHHHHHHHHhcCCCCCCCCC-CChhHHHHH-HHHH
Q 000869          135 LFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGG-VPAEAYLTI-ELSY  212 (1247)
Q Consensus       135 l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l~~~~~~~w~~~l~~l~~~~~~~~~~-~~~~i~~~l-~~sy  212 (1247)
                      +|....|...    ..+.+.+|.+.++|.|+++..++..++..... .......+        .+ ....+...+ ...+
T Consensus       194 ll~~~~~~~~----~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~~~~~~~--------~~~~~~~~~~~l~~~v~  260 (903)
T PRK04841        194 FFDQRLSSPI----EAAESSRLCDDVEGWATALQLIALSARQNNSS-LHDSARRL--------AGINASHLSDYLVEEVL  260 (903)
T ss_pred             HHHhccCCCC----CHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hhhhhHhh--------cCCCchhHHHHHHHHHH
Confidence            9998876422    24567899999999999999998877644210 01111111        11 122344444 3448


Q ss_pred             cCCCchhHHHHHHhccCCCCCcChhHHHHHHHhcCcccccccHHHHHHHHHHHHHHHhhcceeec-cC-CCCceeccHHH
Q 000869          213 NYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLG-GD-NNEKLSMHDVV  290 (1247)
Q Consensus       213 ~~L~~~~~~~~~~~~a~fp~~~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~-~~-~~~~~~~h~lv  290 (1247)
                      +.||++ .++.+...|+++ .++.+.+-...       +.   .+    ....+++|.+.+++.. .+ ....|+.|+++
T Consensus       261 ~~l~~~-~~~~l~~~a~~~-~~~~~l~~~l~-------~~---~~----~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~  324 (903)
T PRK04841        261 DNVDLE-TRHFLLRCSVLR-SMNDALIVRVT-------GE---EN----GQMRLEELERQGLFIQRMDDSGEWFRYHPLF  324 (903)
T ss_pred             hcCCHH-HHHHHHHhcccc-cCCHHHHHHHc-------CC---Cc----HHHHHHHHHHCCCeeEeecCCCCEEehhHHH
Confidence            899999 899999999987 66654433221       11   11    1345888889998653 22 33479999999


Q ss_pred             HHHHHHhhh
Q 000869          291 RAVAISIAC  299 (1247)
Q Consensus       291 ~~~~~~~~~  299 (1247)
                      +++++....
T Consensus       325 r~~l~~~l~  333 (903)
T PRK04841        325 ASFLRHRCQ  333 (903)
T ss_pred             HHHHHHHHH
Confidence            999998763

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.97  E-value=7.5e-11  Score=117.83  Aligned_cols=135  Identities=20%  Similarity=0.228  Sum_probs=116.3

Q ss_pred             CCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCcccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccC
Q 000869          369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN  448 (1247)
Q Consensus       369 ~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~  448 (1247)
                      ..+.|..+|||+|.|+.+.+++.-++.+|+|++++|.+..+..+..|++|.+|||++|.+.++-..=.+|.|.++|.|++
T Consensus       282 TWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~  361 (490)
T KOG1259|consen  282 TWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQ  361 (490)
T ss_pred             hHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhh
Confidence            45679999999999999999999999999999999999999889999999999999998887765556888999999999


Q ss_pred             CCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCc
Q 000869          449 CFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPE  516 (1247)
Q Consensus       449 ~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  516 (1247)
                      | .+..+  +.+++|-+|..|++.+|.+..          -..+..+++++.|+++.+.+|.+..++.
T Consensus       362 N-~iE~L--SGL~KLYSLvnLDl~~N~Ie~----------ldeV~~IG~LPCLE~l~L~~NPl~~~vd  416 (490)
T KOG1259|consen  362 N-KIETL--SGLRKLYSLVNLDLSSNQIEE----------LDEVNHIGNLPCLETLRLTGNPLAGSVD  416 (490)
T ss_pred             h-hHhhh--hhhHhhhhheeccccccchhh----------HHHhcccccccHHHHHhhcCCCccccch
Confidence            9 78777  348899999999999998762          2245688999999999999998876654

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.96  E-value=1.2e-08  Score=118.33  Aligned_cols=266  Identities=21%  Similarity=0.196  Sum_probs=172.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCccccc--------------hHHHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEET--------------ESSRASRLHE   66 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~--------------~~~~~~~~~~   66 (1247)
                      +|.||||++.+.+.....   =..|.|+++++.. +...+...++..++...+...              -......+..
T Consensus        46 AGfGKttl~aq~~~~~~~---~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l~~l~~~L~~  122 (894)
T COG2909          46 AGFGKTTLLAQWRELAAD---GAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYVSLESLLSSLLN  122 (894)
T ss_pred             CCCcHHHHHHHHHHhcCc---ccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccccHHHHHHHHHH
Confidence            799999999999984332   3579999987654 466677777766653332221              1223344444


Q ss_pred             HHhc-CCeEEEEEeCCCCc---ccchhhccCCCCCCCCcEEEEecCChhhhhh---cCCcceEEcC----CCCHHHHHHH
Q 000869           67 QLKR-EEKILIILDNIWKR---VDLETVGIPFGDDHRGCKLLLTARDRTVLFS---MGSEKNFLVD----ILKEEEAWRL  135 (1247)
Q Consensus        67 ~l~~-~~~~LlvlDd~~~~---~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~---~~~~~~~~l~----~l~~~ea~~l  135 (1247)
                      .+.. .++.++||||-.-.   .--+.+...+.....+-.++||||.+.-..-   .-....++++    .|+.+|+.++
T Consensus       123 Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~llEi~~~~Lrf~~eE~~~f  202 (894)
T COG2909         123 ELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDELLEIGSEELRFDTEEAAAF  202 (894)
T ss_pred             HHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhHHhcChHhhcCChHHHHHH
Confidence            4443 47899999997544   2223344444445578889999999875431   1123455555    3899999999


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHHHHHHhcC-ChhHHHHHHHHhcCCCCCCCCCCChhHH-HHHHHHHc
Q 000869          136 FKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNK-SMPQWKTTLQQLRMPSLVNFGGVPAEAY-LTIELSYN  213 (1247)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l~~~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~-~~l~~sy~  213 (1247)
                      |....+..-    .+..+..+.+...|-+-|+..++=.++++ +...-...+           .+...-+. ....--++
T Consensus       203 l~~~~~l~L----d~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~L-----------sG~~~~l~dYL~eeVld  267 (894)
T COG2909         203 LNDRGSLPL----DAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGL-----------SGAASHLSDYLVEEVLD  267 (894)
T ss_pred             HHHcCCCCC----ChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhc-----------cchHHHHHHHHHHHHHh
Confidence            998886432    34567899999999999999999888844 333321111           11111121 23345678


Q ss_pred             CCCchhHHHHHHhccCCCCCcChhHHHHHHHhcCcccccccHHHHHHHHHHHHHHHhhcceeec--cCCCCceeccHHHH
Q 000869          214 YLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLG--GDNNEKLSMHDVVR  291 (1247)
Q Consensus       214 ~L~~~~~~~~~~~~a~fp~~~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~--~~~~~~~~~h~lv~  291 (1247)
                      .||++ +|..+.-+|+++.= .- .|...-      .+       ++....++++|.+++++..  .+..+.|+.|++..
T Consensus       268 ~Lp~~-l~~FLl~~svl~~f-~~-eL~~~L------tg-------~~ng~amLe~L~~~gLFl~~Ldd~~~WfryH~LFa  331 (894)
T COG2909         268 RLPPE-LRDFLLQTSVLSRF-ND-ELCNAL------TG-------EENGQAMLEELERRGLFLQRLDDEGQWFRYHHLFA  331 (894)
T ss_pred             cCCHH-HHHHHHHHHhHHHh-hH-HHHHHH------hc-------CCcHHHHHHHHHhCCCceeeecCCCceeehhHHHH
Confidence            99999 89999999998741 00 111110      01       1223345899999998763  35677899999999


Q ss_pred             HHHHHhhhcc
Q 000869          292 AVAISIACRD  301 (1247)
Q Consensus       292 ~~~~~~~~~e  301 (1247)
                      +|.+.....+
T Consensus       332 eFL~~r~~~~  341 (894)
T COG2909         332 EFLRQRLQRE  341 (894)
T ss_pred             HHHHhhhccc
Confidence            9999877653

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.93  E-value=5.4e-10  Score=109.03  Aligned_cols=103  Identities=26%  Similarity=0.315  Sum_probs=24.2

Q ss_pred             CCcEEEccCCCCccCCcccc-cCCCCcEEEccCcCCCCcccccCCCCCcEEEccCCCCCcCchhh-cCCCCCcEEeccCC
Q 000869          372 KLKVVDFCRMQFFSLPPSID-HLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSNC  449 (1247)
Q Consensus       372 ~Lr~L~Ls~~~i~~lp~~l~-~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i-~~L~~L~~L~L~~~  449 (1247)
                      +++.|+|.+|.|+.+. .++ .+.+|+.|++++|.++.++.+..+++|++|++++|.|+.++..+ ..+++|++|++++|
T Consensus        20 ~~~~L~L~~n~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N   98 (175)
T PF14580_consen   20 KLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNN   98 (175)
T ss_dssp             -----------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS
T ss_pred             cccccccccccccccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCC
Confidence            3444444444444332 233 34445555555555555544555555555555555555554333 23555555555555


Q ss_pred             CCCcccCh-hhhcCCCCCCEEEeecCcc
Q 000869          450 FKLKVIAP-NVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       450 ~~l~~~~~-~~~~~L~~L~~L~l~~~~~  476 (1247)
                       .+..+.. ..++.+++|++|++.+|.+
T Consensus        99 -~I~~l~~l~~L~~l~~L~~L~L~~NPv  125 (175)
T PF14580_consen   99 -KISDLNELEPLSSLPKLRVLSLEGNPV  125 (175)
T ss_dssp             ----SCCCCGGGGG-TT--EEE-TT-GG
T ss_pred             -cCCChHHhHHHHcCCCcceeeccCCcc
Confidence             3333211 1244455555555555544

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.91  E-value=1e-09  Score=107.04  Aligned_cols=134  Identities=27%  Similarity=0.246  Sum_probs=35.8

Q ss_pred             CccccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-c
Q 000869          332 SSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-A  410 (1247)
Q Consensus       332 ~~i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~  410 (1247)
                      +.|+.++...++.+++.|+|++|.+..   +. ..-..+.+|++|++++|.|+.++ .+..+++|++|++++|.++.+ .
T Consensus         7 ~~i~~~~~~~n~~~~~~L~L~~n~I~~---Ie-~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~I~~i~~   81 (175)
T PF14580_consen    7 NMIEQIAQYNNPVKLRELNLRGNQIST---IE-NLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSISE   81 (175)
T ss_dssp             ---------------------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--SS---S-CH
T ss_pred             ccccccccccccccccccccccccccc---cc-chhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCcccc
Confidence            344444444455555666666665542   11 11113556666666666666553 355566666666666666655 2


Q ss_pred             cc-cCCCCCcEEEccCCCCCcCc--hhhcCCCCCcEEeccCCCCCccc---ChhhhcCCCCCCEEEe
Q 000869          411 II-GKLKNLEILSFSGSGIVKLP--EELGQLTKLRHLDLSNCFKLKVI---APNVISSLIRLEELYM  471 (1247)
Q Consensus       411 ~~-~~L~~L~~L~L~~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~~---~~~~~~~L~~L~~L~l  471 (1247)
                      .+ ..+++|++|++++|.|..+.  ..+..+++|++|++.+|. +...   ....+..+++|+.|+.
T Consensus        82 ~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NP-v~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   82 GLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNP-VCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             HHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-G-GGGSTTHHHHHHHH-TT-SEETT
T ss_pred             chHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCc-ccchhhHHHHHHHHcChhheeCC
Confidence            33 24666666666666665432  234556666666666652 2221   1233556677777664

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.91  E-value=6.3e-11  Score=129.27  Aligned_cols=172  Identities=25%  Similarity=0.316  Sum_probs=86.7

Q ss_pred             EEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcC
Q 000869          327 ISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCI  405 (1247)
Q Consensus       327 l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~  405 (1247)
                      .+++.|++.++|..+ .|-.|..+.+..|.+.   .+|..+ ..+..|.+|+|+.|.+..+|..++.| -|++|.+++|+
T Consensus        80 aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r---~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~l-pLkvli~sNNk  154 (722)
T KOG0532|consen   80 ADLSRNRFSELPEEACAFVSLESLILYHNCIR---TIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDL-PLKVLIVSNNK  154 (722)
T ss_pred             hhccccccccCchHHHHHHHHHHHHHHhccce---ecchhh-hhhhHHHHhhhccchhhcCChhhhcC-cceeEEEecCc
Confidence            444445555555433 3444555555555443   223322 45555555555555555555555443 25555555555


Q ss_pred             CCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCC
Q 000869          406 LGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPN  484 (1247)
Q Consensus       406 l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~  484 (1247)
                      ++.+ ..++.+.+|..||.+.|.+..+|..++.+..|+.|+++.| ++..+|+. +..| .|..|+++.|++.       
T Consensus       155 l~~lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn-~l~~lp~E-l~~L-pLi~lDfScNkis-------  224 (722)
T KOG0532|consen  155 LTSLPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRN-HLEDLPEE-LCSL-PLIRLDFSCNKIS-------  224 (722)
T ss_pred             cccCCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhh-hhhhCCHH-HhCC-ceeeeecccCcee-------
Confidence            5443 4455555555555555555555555555555555555555 44455433 3322 3555555555443       


Q ss_pred             cccccccccccCCCCCCcEEEEeecCCCCCCchh
Q 000869          485 SETINSRLDELMHLPRLTTLEVHVKNDNILPEGF  518 (1247)
Q Consensus       485 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~  518 (1247)
                           ..+-.+.+|++|++|.+.+|....-|..+
T Consensus       225 -----~iPv~fr~m~~Lq~l~LenNPLqSPPAqI  253 (722)
T KOG0532|consen  225 -----YLPVDFRKMRHLQVLQLENNPLQSPPAQI  253 (722)
T ss_pred             -----ecchhhhhhhhheeeeeccCCCCCChHHH
Confidence                 33445555555555555555555444433

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.90  E-value=7e-10  Score=125.52  Aligned_cols=184  Identities=21%  Similarity=0.198  Sum_probs=114.2

Q ss_pred             cccceEEEccCCccc-----cccCcC-CCCCccEEEccCCCCcc---ccccchhhhcCCCCCcEEEccCCCCc-cCCccc
Q 000869          321 LRKCYAISIRDSSIH-----ELLEGL-ECPQLEFLYMDSNGSSV---EINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSI  390 (1247)
Q Consensus       321 ~~~~~~l~l~~~~i~-----~~~~~~-~~~~L~~L~l~~n~~~~---~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~lp~~l  390 (1247)
                      ..+++.+.+.++.+.     .+++.. ..+.++.++++++....   ........|..+++|+.|++++|.+. ..+..+
T Consensus        22 l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~  101 (319)
T cd00116          22 LLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVL  101 (319)
T ss_pred             HhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHH
Confidence            344667777777652     333333 56678888888776541   11111245567788888888888776 234444


Q ss_pred             ccCCC---CcEEEccCcCCCC-----c-ccccCC-CCCcEEEccCCCCC-----cCchhhcCCCCCcEEeccCCCCCccc
Q 000869          391 DHLLN---LQTLCLDQCILGD-----V-AIIGKL-KNLEILSFSGSGIV-----KLPEELGQLTKLRHLDLSNCFKLKVI  455 (1247)
Q Consensus       391 ~~l~~---L~~L~L~~~~l~~-----~-~~~~~L-~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~~~  455 (1247)
                      ..+.+   |++|++++|.+..     + ..+..+ ++|+.|++++|.+.     .++..+..+.+|++|++++| .+...
T Consensus       102 ~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n-~l~~~  180 (319)
T cd00116         102 ESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANN-GIGDA  180 (319)
T ss_pred             HHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCC-CCchH
Confidence            44444   8888888887753     1 345566 78888888888776     34455667778888888887 55421


Q ss_pred             ----ChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCC
Q 000869          456 ----APNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDN  512 (1247)
Q Consensus       456 ----~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  512 (1247)
                          .+..+..+.+|++|++++|.+.       ..........+..+++|++|++++|.+.
T Consensus       181 ~~~~l~~~l~~~~~L~~L~L~~n~i~-------~~~~~~l~~~~~~~~~L~~L~ls~n~l~  234 (319)
T cd00116         181 GIRALAEGLKANCNLEVLDLNNNGLT-------DEGASALAETLASLKSLEVLNLGDNNLT  234 (319)
T ss_pred             HHHHHHHHHHhCCCCCEEeccCCccC-------hHHHHHHHHHhcccCCCCEEecCCCcCc
Confidence                1222445568888888887654       1111122344566777888888776554

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.80  E-value=1.5e-09  Score=122.89  Aligned_cols=133  Identities=21%  Similarity=0.206  Sum_probs=62.0

Q ss_pred             CCCccEEEccCCCCcccc-ccchhhhcCCCCCcEEEccCCCCcc-------CCcccccCCCCcEEEccCcCCCCc--ccc
Q 000869          343 CPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFS-------LPPSIDHLLNLQTLCLDQCILGDV--AII  412 (1247)
Q Consensus       343 ~~~L~~L~l~~n~~~~~~-~l~~~~~~~l~~Lr~L~Ls~~~i~~-------lp~~l~~l~~L~~L~L~~~~l~~~--~~~  412 (1247)
                      ++.|+.|+++++.+.... ......+...+.|+.|+++++.+..       ++..+..+.+|+.|++++|.+...  ..+
T Consensus        22 l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~  101 (319)
T cd00116          22 LLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVL  101 (319)
T ss_pred             HhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHH
Confidence            344666666666543210 0011223444556666666654442       123344555666666666655421  222


Q ss_pred             cCC---CCCcEEEccCCCCC-----cCchhhcCC-CCCcEEeccCCCCCccc----ChhhhcCCCCCCEEEeecCcc
Q 000869          413 GKL---KNLEILSFSGSGIV-----KLPEELGQL-TKLRHLDLSNCFKLKVI----APNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       413 ~~L---~~L~~L~L~~~~i~-----~lp~~i~~L-~~L~~L~L~~~~~l~~~----~~~~~~~L~~L~~L~l~~~~~  476 (1247)
                      ..+   ++|++|++++|.+.     .+...+..+ ++|+.|++++| .+...    ....+..+.+|++|++++|.+
T Consensus       102 ~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n-~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l  177 (319)
T cd00116         102 ESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRN-RLEGASCEALAKALRANRDLKELNLANNGI  177 (319)
T ss_pred             HHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCC-cCCchHHHHHHHHHHhCCCcCEEECcCCCC
Confidence            222   23666666665554     122334444 55666666665 33310    012244445566666655544

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>PF05729 NACHT: NACHT domain

Probab=98.75  E-value=5.7e-08  Score=97.75  Aligned_cols=134  Identities=19%  Similarity=0.277  Sum_probs=86.9

Q ss_pred             CCccHHHHHHHHHHHhhhccC----CCeEEEEEcCCccCHH---HHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeE
Q 000869            2 GGIGKTTLVKEVARKARKDKL----FDRVVFSEVSQTIDIK---KIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKI   74 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~----f~~~~w~~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~   74 (1247)
                      +|+||||++++++.+......    +..++|+..+......   .+...+..+..........     .....+...+++
T Consensus         9 ~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~-----~~~~~~~~~~~~   83 (166)
T PF05729_consen    9 PGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEE-----LLQELLEKNKRV   83 (166)
T ss_pred             CCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHH-----HHHHHHHcCCce
Confidence            799999999999998876543    3456777766544332   4444444444322111111     222333357999


Q ss_pred             EEEEeCCCCcccc---------hhhccCCCC--CCCCcEEEEecCChhhhh---hcCCcceEEcCCCCHHHHHHHHHHHh
Q 000869           75 LIILDNIWKRVDL---------ETVGIPFGD--DHRGCKLLLTARDRTVLF---SMGSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        75 LlvlDd~~~~~~~---------~~l~~~~~~--~~~~~~vliTtR~~~~~~---~~~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      ++|+|++|+...-         ..+...+..  ..++.+++||+|......   .......+++++|++++..+++.++.
T Consensus        84 llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~f  163 (166)
T PF05729_consen   84 LLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDIKQYLRKYF  163 (166)
T ss_pred             EEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHHHHHHHHHh
Confidence            9999999886331         112211222  256899999999987722   33445689999999999999998876

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

Probab=98.74  E-value=7.4e-07  Score=97.58  Aligned_cols=170  Identities=15%  Similarity=0.226  Sum_probs=107.9

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHH----HHhcCCeEEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHE----QLKREEKILI   76 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~----~l~~~~~~Ll   76 (1247)
                      .+|+||||+++.+++...... + .++|+. ....+..+++..++..+|..............+.+    ....+++.++
T Consensus        51 ~~G~GKTtl~~~l~~~l~~~~-~-~~~~~~-~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~~~~~~vl  127 (269)
T TIGR03015        51 EVGAGKTTLIRNLLKRLDQER-V-VAAKLV-NTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFAAGKRALL  127 (269)
T ss_pred             CCCCCHHHHHHHHHHhcCCCC-e-EEeeee-CCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHhCCCCeEE
Confidence            379999999999998876321 1 123332 33456778899999999876544433333333333    2335788999


Q ss_pred             EEeCCCCcc--cchhhc---cCCCCCCCCcEEEEecCChhhhhhc----------CCcceEEcCCCCHHHHHHHHHHHh-
Q 000869           77 ILDNIWKRV--DLETVG---IPFGDDHRGCKLLLTARDRTVLFSM----------GSEKNFLVDILKEEEAWRLFKLMA-  140 (1247)
Q Consensus        77 vlDd~~~~~--~~~~l~---~~~~~~~~~~~vliTtR~~~~~~~~----------~~~~~~~l~~l~~~ea~~l~~~~~-  140 (1247)
                      |+|+++...  .++.+.   ..-........|++|.... ....+          .....+.+++++.+|..+++...+ 
T Consensus       128 iiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~~l~~~l~  206 (269)
T TIGR03015       128 VVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREETREYIEHRLE  206 (269)
T ss_pred             EEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHHHHHHHHHHH
Confidence            999998763  333332   1111122233455665432 11111          113467899999999999998777 


Q ss_pred             --CCCCCChhhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          141 --GDDVENRELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       141 --~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                        |......-..+....|++.++|.|..|..++..+
T Consensus       207 ~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       207 RAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence              2211222345789999999999999999888776

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.

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.71  E-value=8e-10  Score=120.84  Aligned_cols=148  Identities=25%  Similarity=0.335  Sum_probs=102.6

Q ss_pred             ccceEEEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEE
Q 000869          322 RKCYAISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLC  400 (1247)
Q Consensus       322 ~~~~~l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~  400 (1247)
                      -.+..+.+..|.+..+|..+ .+..|++|+++.|.+.   .+|..++ .+ -|++|-+++|+++.+|+.++.+.+|..||
T Consensus        98 ~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS---~lp~~lC-~l-pLkvli~sNNkl~~lp~~ig~~~tl~~ld  172 (722)
T KOG0532|consen   98 VSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQLS---HLPDGLC-DL-PLKVLIVSNNKLTSLPEEIGLLPTLAHLD  172 (722)
T ss_pred             HHHHHHHHHhccceecchhhhhhhHHHHhhhccchhh---cCChhhh-cC-cceeEEEecCccccCCcccccchhHHHhh
Confidence            34455666677777777655 6777777777777766   4555542 22 37777777777777777777777777777


Q ss_pred             ccCcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccc
Q 000869          401 LDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       401 L~~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~  477 (1247)
                      .+.|.+..+ +.++.|.+||.|.++.|++..+|.+++.|+ |..||++.| ++..+| -.|.+|+.|++|-+.+|.+.
T Consensus       173 ~s~nei~slpsql~~l~slr~l~vrRn~l~~lp~El~~Lp-Li~lDfScN-kis~iP-v~fr~m~~Lq~l~LenNPLq  247 (722)
T KOG0532|consen  173 VSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDLPEELCSLP-LIRLDFSCN-KISYLP-VDFRKMRHLQVLQLENNPLQ  247 (722)
T ss_pred             hhhhhhhhchHHhhhHHHHHHHHHhhhhhhhCCHHHhCCc-eeeeecccC-ceeecc-hhhhhhhhheeeeeccCCCC
Confidence            777776655 667777777777777777777777777554 777777776 666663 44777777777777777655

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.70  E-value=2.1e-09  Score=107.75  Aligned_cols=124  Identities=21%  Similarity=0.243  Sum_probs=71.6

Q ss_pred             cccceEEEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEE
Q 000869          321 LRKCYAISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTL  399 (1247)
Q Consensus       321 ~~~~~~l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L  399 (1247)
                      |+-+..+++++|.|+.+.+.+ -.|+++.|+++.|++...     +.+..+.+|..||||+|.+.++--.-.++-|.++|
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v-----~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL  357 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTV-----QNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTL  357 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccceeee-----hhhhhcccceEeecccchhHhhhhhHhhhcCEeee
Confidence            455666666666666666555 346666666666655411     12455666666666666655554333455566666


Q ss_pred             EccCcCCCCcccccCCCCCcEEEccCCCCCcCc--hhhcCCCCCcEEeccCC
Q 000869          400 CLDQCILGDVAIIGKLKNLEILSFSGSGIVKLP--EELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       400 ~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp--~~i~~L~~L~~L~L~~~  449 (1247)
                      .|.+|.++.++.+++|.+|.+||+++|+|..+-  .+||+|+-|++|.|.+|
T Consensus       358 ~La~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~N  409 (490)
T KOG1259|consen  358 KLAQNKIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGN  409 (490)
T ss_pred             ehhhhhHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCC
Confidence            666666666666666666666666666665442  34556666666655555

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.61  E-value=6.3e-08  Score=103.78  Aligned_cols=282  Identities=21%  Similarity=0.228  Sum_probs=186.0

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCC-eEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEe
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFD-RVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~-~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      .|||||||++-.+++ .+.  .|+ ++.+++.....+...+.-.++..++......+  .....+..+.. ++|.++|+|
T Consensus        22 ~ggvgkttl~~~~a~-~~~--~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g~--~~~~~~~~~~~-~rr~llvld   95 (414)
T COG3903          22 AGGVGKTTLALQAAH-AAS--EYADGVAFVDLAPITDPALVFPTLAGALGLHVQPGD--SAVDTLVRRIG-DRRALLVLD   95 (414)
T ss_pred             cCccceehhhhhhHh-Hhh--hcccceeeeeccccCchhHhHHHHHhhcccccccch--HHHHHHHHHHh-hhhHHHHhc
Confidence            389999999999999 442  264 56677888888888777777777887664321  12223344443 799999999


Q ss_pred             CCCCccc-chhhccCCCCCCCCcEEEEecCChhhhhhcCCcceEEcCCCCH-HHHHHHHHHHhC----CCCCChhhHHHH
Q 000869           80 NIWKRVD-LETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKE-EEAWRLFKLMAG----DDVENRELKSTA  153 (1247)
Q Consensus        80 d~~~~~~-~~~l~~~~~~~~~~~~vliTtR~~~~~~~~~~~~~~~l~~l~~-~ea~~l~~~~~~----~~~~~~~~~~~~  153 (1247)
                      |.....+ ..++...+......-.++.|+|....   +.+.....+++++. +++.++|...+.    ...-.......+
T Consensus        96 ncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~~~~a~v  172 (414)
T COG3903          96 NCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTDDNAAAV  172 (414)
T ss_pred             CcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccceeecCCchHHH
Confidence            9876622 22222233334556678999988754   35566777888876 489999888772    112223345789


Q ss_pred             HHHHHHcCCCchHHHHHHHHHhcCChhHHHHHHH----HhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHHhccC
Q 000869          154 TEVAKACKGLPIALTTIARALRNKSMPQWKTTLQ----QLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCSL  229 (1247)
Q Consensus       154 ~~i~~~~~g~Plai~~~a~~l~~~~~~~w~~~l~----~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~~~a~  229 (1247)
                      ..|+++.+|.|++|..+++..+.-...+-.+.++    .++.- ...-........+.+.+||.-|... -+..|..++.
T Consensus       173 ~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgw-e~~~~~rLa~  250 (414)
T COG3903         173 AEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGW-ERALFGRLAV  250 (414)
T ss_pred             HHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhH-HHHHhcchhh
Confidence            9999999999999999999998775555433333    22222 1111122335678999999999998 5999999999


Q ss_pred             CCCCcChhHHHHHHHhcCcccccccHHHHHHHHHHHHHHHhhcceeeccC--CCCceeccHHHHHHHHHhhhc
Q 000869          230 MGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGD--NNEKLSMHDVVRAVAISIACR  300 (1247)
Q Consensus       230 fp~~~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~~~--~~~~~~~h~lv~~~~~~~~~~  300 (1247)
                      |..+|...  ...|.+.|-....     ..-.....+..+++.+++-..+  ....|+.-+.+|.|+..+..+
T Consensus       251 ~~g~f~~~--l~~~~a~g~~~~~-----~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r  316 (414)
T COG3903         251 FVGGFDLG--LALAVAAGADVDV-----PRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHR  316 (414)
T ss_pred             hhhhhccc--HHHHHhcCCcccc-----chHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            99888775  3444444443211     1222333456677888875432  233577778888888776654

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.61  E-value=3.4e-08  Score=114.94  Aligned_cols=173  Identities=29%  Similarity=0.353  Sum_probs=91.9

Q ss_pred             CCCCccEEEccCCCCccccccchhhhcCCC-CCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCccc-ccCCCCCc
Q 000869          342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMK-KLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAI-IGKLKNLE  419 (1247)
Q Consensus       342 ~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~-~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~~~-~~~L~~L~  419 (1247)
                      ..+.++.|++.+|.+.   .+++.. ..++ +|+.|++++|.+..+|..+..+++|+.|++++|++..++. .+.+..|+
T Consensus       114 ~~~~l~~L~l~~n~i~---~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~  189 (394)
T COG4886         114 ELTNLTSLDLDNNNIT---DIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLN  189 (394)
T ss_pred             cccceeEEecCCcccc---cCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhh
Confidence            4455566666666555   333322 3332 5666666666666665555666666666666666655532 23666666


Q ss_pred             EEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCC
Q 000869          420 ILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLP  499 (1247)
Q Consensus       420 ~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~  499 (1247)
                      .|++++|.+..+|..+..+.+|++|.+++|. +... +..+.++.++..|.+.++.+.            ..+..++.++
T Consensus       190 ~L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~-~~~~-~~~~~~~~~l~~l~l~~n~~~------------~~~~~~~~l~  255 (394)
T COG4886         190 NLDLSGNKISDLPPEIELLSALEELDLSNNS-IIEL-LSSLSNLKNLSGLELSNNKLE------------DLPESIGNLS  255 (394)
T ss_pred             heeccCCccccCchhhhhhhhhhhhhhcCCc-ceec-chhhhhcccccccccCCceee------------eccchhcccc
Confidence            6666666666666555555556666666552 2222 122555555555554444332            1134445555


Q ss_pred             CCcEEEEeecCCCCCCchhhccccceeeEEecC
Q 000869          500 RLTTLEVHVKNDNILPEGFFARKLERFKISVGE  532 (1247)
Q Consensus       500 ~L~~L~l~~~~~~~~~~~~~~~~L~~l~i~~~~  532 (1247)
                      +++.|+++.|.+..++......+++.++++.+.
T Consensus       256 ~l~~L~~s~n~i~~i~~~~~~~~l~~L~~s~n~  288 (394)
T COG4886         256 NLETLDLSNNQISSISSLGSLTNLRELDLSGNS  288 (394)
T ss_pred             ccceeccccccccccccccccCccCEEeccCcc
Confidence            566666666665555553344555555555444

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.60  E-value=1.1e-08  Score=108.86  Aligned_cols=207  Identities=21%  Similarity=0.178  Sum_probs=142.3

Q ss_pred             hcccceEEEccCCccccccC---cCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcc--cccCC
Q 000869          320 ALRKCYAISIRDSSIHELLE---GLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPS--IDHLL  394 (1247)
Q Consensus       320 ~~~~~~~l~l~~~~i~~~~~---~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~--l~~l~  394 (1247)
                      ..+++|.+++.++.+...+.   .-.|++++.|+|++|-+.... .--.+...+++|+.|+++.|.+...-++  -..+.
T Consensus       119 n~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~-~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  119 NLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWF-PVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHH-HHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            35688899999988877763   337999999999998665332 2245668899999999999987643222  23678


Q ss_pred             CCcEEEccCcCCCC--c-ccccCCCCCcEEEccCC-CCCcCchhhcCCCCCcEEeccCCCCCcccC-hhhhcCCCCCCEE
Q 000869          395 NLQTLCLDQCILGD--V-AIIGKLKNLEILSFSGS-GIVKLPEELGQLTKLRHLDLSNCFKLKVIA-PNVISSLIRLEEL  469 (1247)
Q Consensus       395 ~L~~L~L~~~~l~~--~-~~~~~L~~L~~L~L~~~-~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~-~~~~~~L~~L~~L  469 (1247)
                      +|+.|.|+.|.++.  + .....+++|..|+|..| .+..--.+...+..|+.|||++| .+..++ ....+.++.|+.|
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N-~li~~~~~~~~~~l~~L~~L  276 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNN-NLIDFDQGYKVGTLPGLNQL  276 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCC-cccccccccccccccchhhh
Confidence            99999999998863  3 45667899999999999 44333344556778999999998 454443 2337788999999


Q ss_pred             EeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCchh---hccccceeeEEecCc
Q 000869          470 YMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF---FARKLERFKISVGEA  533 (1247)
Q Consensus       470 ~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~---~~~~L~~l~i~~~~l  533 (1247)
                      +++.|.+.......     .........+++|+.|++..|.+...+..-   .+.+|+.|.+..+.+
T Consensus       277 nls~tgi~si~~~d-----~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~l  338 (505)
T KOG3207|consen  277 NLSSTGIASIAEPD-----VESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNYL  338 (505)
T ss_pred             hccccCcchhcCCC-----ccchhhhcccccceeeecccCccccccccchhhccchhhhhhcccccc
Confidence            99888765322211     111223456788999999888875444322   455666666555553

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.58  E-value=9e-09  Score=109.41  Aligned_cols=181  Identities=21%  Similarity=0.223  Sum_probs=134.3

Q ss_pred             hhcccceEEEccCCccccccCcC----CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCc--cCCccccc
Q 000869          319 DALRKCYAISIRDSSIHELLEGL----ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF--SLPPSIDH  392 (1247)
Q Consensus       319 ~~~~~~~~l~l~~~~i~~~~~~~----~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~--~lp~~l~~  392 (1247)
                      ....++|.++++.|-+.++....    .+|+|+.|+++.|......  ....-..+++|+.|.|+.|+++  .+......
T Consensus       143 k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~--~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~  220 (505)
T KOG3207|consen  143 KILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFI--SSNTTLLLSHLKQLVLNSCGLSWKDVQWILLT  220 (505)
T ss_pred             hhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCc--cccchhhhhhhheEEeccCCCCHHHHHHHHHh
Confidence            34668899999998777665432    7999999999999877554  3333347889999999999987  44444567


Q ss_pred             CCCCcEEEccCcCCCCc--ccccCCCCCcEEEccCCCCCcCc--hhhcCCCCCcEEeccCCCCCcccChhh------hcC
Q 000869          393 LLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLP--EELGQLTKLRHLDLSNCFKLKVIAPNV------ISS  462 (1247)
Q Consensus       393 l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp--~~i~~L~~L~~L~L~~~~~l~~~~~~~------~~~  462 (1247)
                      +++|+.|+|.+|....+  .....+..|+.|||++|.+...+  .-++.++.|..|+++.| .+..+....      ...
T Consensus       221 fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~t-gi~si~~~d~~s~~kt~~  299 (505)
T KOG3207|consen  221 FPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSST-GIASIAEPDVESLDKTHT  299 (505)
T ss_pred             CCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhcccc-CcchhcCCCccchhhhcc
Confidence            88999999999953222  55667888999999999887766  45789999999999988 666542211      245


Q ss_pred             CCCCCEEEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCC
Q 000869          463 LIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDN  512 (1247)
Q Consensus       463 L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  512 (1247)
                      +.+|+.|++..|.+.          ....+..+..+++|+.|.+..+.+.
T Consensus       300 f~kL~~L~i~~N~I~----------~w~sl~~l~~l~nlk~l~~~~n~ln  339 (505)
T KOG3207|consen  300 FPKLEYLNISENNIR----------DWRSLNHLRTLENLKHLRITLNYLN  339 (505)
T ss_pred             cccceeeecccCccc----------cccccchhhccchhhhhhccccccc
Confidence            788999999988774          1244566777778888877666554

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.52  E-value=8e-08  Score=111.81  Aligned_cols=177  Identities=26%  Similarity=0.339  Sum_probs=147.8

Q ss_pred             cccceEEEccCCccccccCcCCCC--CccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcE
Q 000869          321 LRKCYAISIRDSSIHELLEGLECP--QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQT  398 (1247)
Q Consensus       321 ~~~~~~l~l~~~~i~~~~~~~~~~--~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~  398 (1247)
                      ...+..+.+..+.+.+++......  +|+.|++++|.+.   .+| ...+.+++|+.|++++|.+..+|...+.+.+|+.
T Consensus       115 ~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~---~l~-~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~  190 (394)
T COG4886         115 LTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIE---SLP-SPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNN  190 (394)
T ss_pred             ccceeEEecCCcccccCccccccchhhcccccccccchh---hhh-hhhhccccccccccCCchhhhhhhhhhhhhhhhh
Confidence            356899999999999999988654  8999999999887   333 2348999999999999999999988779999999


Q ss_pred             EEccCcCCCCccc-ccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccc
Q 000869          399 LCLDQCILGDVAI-IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       399 L~L~~~~l~~~~~-~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~  477 (1247)
                      |++++|.+..++. ++.+.+|++|.+++|.+...+..+.++.++..|.+.++ .+..+ +..++.+.+++.|++++|.+.
T Consensus       191 L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n-~~~~~-~~~~~~l~~l~~L~~s~n~i~  268 (394)
T COG4886         191 LDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNN-KLEDL-PESIGNLSNLETLDLSNNQIS  268 (394)
T ss_pred             eeccCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCc-eeeec-cchhccccccceecccccccc
Confidence            9999999999844 46778899999999987788888999999999998888 56554 345889999999999998765


Q ss_pred             cccCCCCcccccccccccCCCCCCcEEEEeecCCCCCCc
Q 000869          478 WEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPE  516 (1247)
Q Consensus       478 ~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~  516 (1247)
                                   .+..++.+.+++.|+++++.....+.
T Consensus       269 -------------~i~~~~~~~~l~~L~~s~n~~~~~~~  294 (394)
T COG4886         269 -------------SISSLGSLTNLRELDLSGNSLSNALP  294 (394)
T ss_pred             -------------ccccccccCccCEEeccCccccccch
Confidence                         23348889999999999887765443

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.44  E-value=3e-05  Score=90.14  Aligned_cols=257  Identities=16%  Similarity=0.152  Sum_probs=144.0

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCC-cc--ccchHHHHHHHHHHHhc-CCeEEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV-LQ--EETESSRASRLHEQLKR-EEKILI   76 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~-~~--~~~~~~~~~~~~~~l~~-~~~~Ll   76 (1247)
                      .+|+|||+++++++++.......-.++|+++....+...++..++.+++.. .+  .....+....+.+.+.. +++.+|
T Consensus        63 ~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~vi  142 (394)
T PRK00411         63 PPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIV  142 (394)
T ss_pred             CCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEE
Confidence            379999999999999886543224577888887788889999999998652 21  12234445566666653 467899


Q ss_pred             EEeCCCCcc------cchhhccCCCCCCCCcE--EEEecCChhhhhhc-------CCcceEEcCCCCHHHHHHHHHHHhC
Q 000869           77 ILDNIWKRV------DLETVGIPFGDDHRGCK--LLLTARDRTVLFSM-------GSEKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        77 vlDd~~~~~------~~~~l~~~~~~~~~~~~--vliTtR~~~~~~~~-------~~~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      |+|+++...      .+..+...+. ...+++  +|.++....+....       .....+.+++++.++..+++..++.
T Consensus       143 viDE~d~l~~~~~~~~l~~l~~~~~-~~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~  221 (394)
T PRK00411        143 ALDDINYLFEKEGNDVLYSLLRAHE-EYPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVE  221 (394)
T ss_pred             EECCHhHhhccCCchHHHHHHHhhh-ccCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHH
Confidence            999998742      2333322211 112323  56665554432211       1234678999999999999998872


Q ss_pred             CC-CCChhhHHHHHHHHHHc----CCCchHHHHHHHHHh----c---C-ChhHHHHHHHHhcCCCCCCCCCCChhHHHHH
Q 000869          142 DD-VENRELKSTATEVAKAC----KGLPIALTTIARALR----N---K-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTI  208 (1247)
Q Consensus       142 ~~-~~~~~~~~~~~~i~~~~----~g~Plai~~~a~~l~----~---~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l  208 (1247)
                      .. ....-..+++..|++.+    |..+.|+.++.....    .   . +......++++..              ....
T Consensus       222 ~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~--------------~~~~  287 (394)
T PRK00411        222 EGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSE--------------IVHL  287 (394)
T ss_pred             hhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHH--------------HHHH
Confidence            11 11111233444444444    456777766543221    1   1 4445555555421              1234


Q ss_pred             HHHHcCCCchhHHHHHHhccCC-C---CCcChhHHHHHHH--hcCcccccccHHHHHHHHHHHHHHHhhcceeec
Q 000869          209 ELSYNYLEGEKLKNIFLLCSLM-G---NEIATSDLFKYCM--CLGIFKGVDTMENARTNFYALIHQLRDCFLLLG  277 (1247)
Q Consensus       209 ~~sy~~L~~~~~~~~~~~~a~f-p---~~~~~~~l~~~w~--~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~  277 (1247)
                      .-.+..||.+ .|..+.-++.. .   ..+...++.....  +..+  +..  ......+-++++.|...+++..
T Consensus       288 ~~~~~~L~~~-~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~--~~~--~~~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        288 SEVLRTLPLH-EKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEEL--GYE--PRTHTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             HHHHhcCCHH-HHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHc--CCC--cCcHHHHHHHHHHHHhcCCeEE
Confidence            5568899997 34444433322 1   2355555443211  1111  111  1122445567888888888764

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.37  E-value=1.3e-06  Score=96.02  Aligned_cols=60  Identities=15%  Similarity=0.189  Sum_probs=33.4

Q ss_pred             cccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcceeeccCCCcccccccccccceeeecccccchhh
Q 000869          971 FGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQL 1044 (1247)
Q Consensus       971 ~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~~l 1044 (1247)
                      +.+++.|++++| .++.+ |    .-..+|++|.|++|..++.++..        .+++|+.|++.+|.+++.+
T Consensus        51 ~~~l~~L~Is~c-~L~sL-P----~LP~sLtsL~Lsnc~nLtsLP~~--------LP~nLe~L~Ls~Cs~L~sL  110 (426)
T PRK15386         51 ARASGRLYIKDC-DIESL-P----VLPNELTEITIENCNNLTTLPGS--------IPEGLEKLTVCHCPEISGL  110 (426)
T ss_pred             hcCCCEEEeCCC-CCccc-C----CCCCCCcEEEccCCCCcccCCch--------hhhhhhheEccCccccccc
Confidence            356666666666 44444 2    11235666666666666555431        1456666666666655544

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.34  E-value=4.6e-07  Score=72.39  Aligned_cols=59  Identities=27%  Similarity=0.452  Sum_probs=38.3

Q ss_pred             CCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccC-CcccccCCCCcEEEccCcC
Q 000869          344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL-PPSIDHLLNLQTLCLDQCI  405 (1247)
Q Consensus       344 ~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~l~~l~~L~~L~L~~~~  405 (1247)
                      |+|++|++++|.+.   .++.+.|..+++|++|++++|.+..+ |.+|..+++|++|++++|.
T Consensus         1 p~L~~L~l~~n~l~---~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNNKLT---EIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTES---EECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCC---ccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45666666666655   44666667777777777777777666 3456666666666666664

...

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

Probab=98.23  E-value=5.1e-05  Score=81.26  Aligned_cols=203  Identities=14%  Similarity=0.136  Sum_probs=119.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+||||||+.++......  |     ..++...+-.+-++++                +++-.+....|++.+|++|.|
T Consensus        57 PG~GKTTlA~liA~~~~~~--f-----~~~sAv~~gvkdlr~i----------------~e~a~~~~~~gr~tiLflDEI  113 (436)
T COG2256          57 PGTGKTTLARLIAGTTNAA--F-----EALSAVTSGVKDLREI----------------IEEARKNRLLGRRTILFLDEI  113 (436)
T ss_pred             CCCCHHHHHHHHHHhhCCc--e-----EEeccccccHHHHHHH----------------HHHHHHHHhcCCceEEEEehh
Confidence            7999999999999876533  3     3333222211111111                222223333489999999999


Q ss_pred             CCc--ccchhhccCCCCCCCCcEEEE--ecCChhhhh---hcCCcceEEcCCCCHHHHHHHHHHHhCCC-C-----CChh
Q 000869           82 WKR--VDLETVGIPFGDDHRGCKLLL--TARDRTVLF---SMGSEKNFLVDILKEEEAWRLFKLMAGDD-V-----ENRE  148 (1247)
Q Consensus        82 ~~~--~~~~~l~~~~~~~~~~~~vli--TtR~~~~~~---~~~~~~~~~l~~l~~~ea~~l~~~~~~~~-~-----~~~~  148 (1247)
                      ..-  .+.+.|.   +....|.-|+|  ||.++...-   ......++.+++|+.++-.+++.+.+-+. .     ...-
T Consensus       114 HRfnK~QQD~lL---p~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i  190 (436)
T COG2256         114 HRFNKAQQDALL---PHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVL  190 (436)
T ss_pred             hhcChhhhhhhh---hhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccC
Confidence            754  4555553   33446776676  888886532   23557799999999999999999955111 1     1112


Q ss_pred             hHHHHHHHHHHcCCCchHHHHHHHHHh----cCChhHHHHHHHHhcCCCC---CCCCCCChhHHHHHHHHHcCCCchhHH
Q 000869          149 LKSTATEVAKACKGLPIALTTIARALR----NKSMPQWKTTLQQLRMPSL---VNFGGVPAEAYLTIELSYNYLEGEKLK  221 (1247)
Q Consensus       149 ~~~~~~~i~~~~~g~Plai~~~a~~l~----~~~~~~w~~~l~~l~~~~~---~~~~~~~~~i~~~l~~sy~~L~~~~~~  221 (1247)
                      .+++..-+++.++|--.+.-....+..    ...... .+.+++......   ++-.+...++.++|.-|.+.=+++  .
T Consensus       191 ~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~-~~~l~~~l~~~~~~~Dk~gD~hYdliSA~hKSvRGSD~d--A  267 (436)
T COG2256         191 DEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLI-LELLEEILQRRSARFDKDGDAHYDLISALHKSVRGSDPD--A  267 (436)
T ss_pred             CHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccC-HHHHHHHHhhhhhccCCCcchHHHHHHHHHHhhccCCcC--H
Confidence            345778888999887654444333332    221111 222333222211   222344557888999999888877  5


Q ss_pred             HHHHhccCCCCC
Q 000869          222 NIFLLCSLMGNE  233 (1247)
Q Consensus       222 ~~~~~~a~fp~~  233 (1247)
                      ..+.++.++..|
T Consensus       268 ALyylARmi~~G  279 (436)
T COG2256         268 ALYYLARMIEAG  279 (436)
T ss_pred             HHHHHHHHHhcC
Confidence            566666666544

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=98.20  E-value=6.8e-08  Score=116.74  Aligned_cols=41  Identities=24%  Similarity=0.310  Sum_probs=29.4

Q ss_pred             cccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcc
Q 000869          971 FGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCK 1011 (1247)
Q Consensus       971 ~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l 1011 (1247)
                      +++|+.|.+.+|..+++.....+...+++|++|+|++|..+
T Consensus       268 c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  268 CPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             CCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            56777777777777666555666677777777777777766

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.19  E-value=1e-06  Score=70.34  Aligned_cols=58  Identities=38%  Similarity=0.531  Sum_probs=36.7

Q ss_pred             CCcEEEccCCCCCcCch-hhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCc
Q 000869          417 NLEILSFSGSGIVKLPE-ELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF  475 (1247)
Q Consensus       417 ~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~  475 (1247)
                      +|++|++++|.++.+|. .|..+++|++|++++| .++.+++..|..+++|++|++++|.
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N-~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNN-NLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSS-SESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCC-ccCccCHHHHcCCCCCCEEeCcCCc
Confidence            56666666666666653 4566666666666666 5666666666666666666666653

...

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.17  E-value=4.8e-06  Score=91.60  Aligned_cols=70  Identities=19%  Similarity=0.312  Sum_probs=39.1

Q ss_pred             cccccEEEEccCcccccccchhHHhhhcccCeeeeccccccceeeccCCCCCCCcCceeccccCceecccCCccccccCC
Q 000869          812 FQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPG  891 (1247)
Q Consensus       812 ~~~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~  891 (1247)
                      +.+++.|+|++| .++.++     .-.++|++|.+++|.+++.++..           ..++|+.|.+.+|.++..+|  
T Consensus        51 ~~~l~~L~Is~c-~L~sLP-----~LP~sLtsL~Lsnc~nLtsLP~~-----------LP~nLe~L~Ls~Cs~L~sLP--  111 (426)
T PRK15386         51 ARASGRLYIKDC-DIESLP-----VLPNELTEITIENCNNLTTLPGS-----------IPEGLEKLTVCHCPEISGLP--  111 (426)
T ss_pred             hcCCCEEEeCCC-CCcccC-----CCCCCCcEEEccCCCCcccCCch-----------hhhhhhheEccCcccccccc--
Confidence            456677777776 566652     11235667777776666554420           12466666666666555443  


Q ss_pred             CCcCCCCCccEEEEe
Q 000869          892 MHTSEWPALKVLNVL  906 (1247)
Q Consensus       892 ~~~~~~~~L~~L~i~  906 (1247)
                            ++|+.|++.
T Consensus       112 ------~sLe~L~L~  120 (426)
T PRK15386        112 ------ESVRSLEIK  120 (426)
T ss_pred             ------cccceEEeC
Confidence                  345555554

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.17  E-value=0.00047  Score=79.30  Aligned_cols=259  Identities=16%  Similarity=0.130  Sum_probs=142.1

Q ss_pred             CCCccHHHHHHHHHHHhhhcc-CC---CeEEEEEcCCccCHHHHHHHHHHHh---CCCccc--cchHHHHHHHHHHHhc-
Q 000869            1 MGGIGKTTLVKEVARKARKDK-LF---DRVVFSEVSQTIDIKKIQQAIAEKL---GLVLQE--ETESSRASRLHEQLKR-   70 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~-~f---~~~~w~~~~~~~~~~~~~~~i~~~l---~~~~~~--~~~~~~~~~~~~~l~~-   70 (1247)
                      .+|+|||+++++++++..... ..   -.++|+++....+...++..++.++   +...+.  ....+....+.+.+.. 
T Consensus        48 ~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~  127 (365)
T TIGR02928        48 KTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELANQLRGSGEEVPTTGLSTSEVFRRLYKELNER  127 (365)
T ss_pred             CCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhc
Confidence            379999999999999875321 11   1467888888778888999999988   333221  2233444556666543 


Q ss_pred             CCeEEEEEeCCCCcc--c---chhhccCC-CCCC--CCcEEEEecCChhhhhhc-------CCcceEEcCCCCHHHHHHH
Q 000869           71 EEKILIILDNIWKRV--D---LETVGIPF-GDDH--RGCKLLLTARDRTVLFSM-------GSEKNFLVDILKEEEAWRL  135 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~---~~~l~~~~-~~~~--~~~~vliTtR~~~~~~~~-------~~~~~~~l~~l~~~ea~~l  135 (1247)
                      +++++||||+++...  .   +..+.... ....  ....+|.+|........+       .....+.+++++.+|..++
T Consensus       128 ~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~i  207 (365)
T TIGR02928       128 GDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDI  207 (365)
T ss_pred             CCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHH
Confidence            578899999998761  1   22222110 0111  233445555444322111       1124688999999999999


Q ss_pred             HHHHhC--CC--CCChhhHHHHHHHHHHcCCCch-HHHHHHHHH--h--c---C-ChhHHHHHHHHhcCCCCCCCCCCCh
Q 000869          136 FKLMAG--DD--VENRELKSTATEVAKACKGLPI-ALTTIARAL--R--N---K-SMPQWKTTLQQLRMPSLVNFGGVPA  202 (1247)
Q Consensus       136 ~~~~~~--~~--~~~~~~~~~~~~i~~~~~g~Pl-ai~~~a~~l--~--~---~-~~~~w~~~l~~l~~~~~~~~~~~~~  202 (1247)
                      +...+.  ..  ....+..+...+++....|.|. |+.++-...  .  .   . +.+......+.+.            
T Consensus       208 l~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~------------  275 (365)
T TIGR02928       208 LENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIE------------  275 (365)
T ss_pred             HHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH------------
Confidence            998873  11  1122223445566667778773 333322211  1  1   1 3333333333221            


Q ss_pred             hHHHHHHHHHcCCCchhHHHHHHhccCC---C-CCcChhHHHHHHHh--cCcccccccHHHHHHHHHHHHHHHhhcceee
Q 000869          203 EAYLTIELSYNYLEGEKLKNIFLLCSLM---G-NEIATSDLFKYCMC--LGIFKGVDTMENARTNFYALIHQLRDCFLLL  276 (1247)
Q Consensus       203 ~i~~~l~~sy~~L~~~~~~~~~~~~a~f---p-~~~~~~~l~~~w~~--~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~  276 (1247)
                        .....-.+..||.+ .+..+..++..   . ..+...++...+..  +.+  +.  .......+.++++.|...|++.
T Consensus       276 --~~~~~~~i~~l~~~-~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~~--~~--~~~~~~~~~~~l~~l~~~gli~  348 (365)
T TIGR02928       276 --KDRLLELIRGLPTH-SKLVLLAIANLAANDEDPFRTGEVYEVYKEVCEDI--GV--DPLTQRRISDLLNELDMLGLVE  348 (365)
T ss_pred             --HHHHHHHHHcCCHH-HHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHhc--CC--CCCcHHHHHHHHHHHHhcCCeE
Confidence              12334566788887 45444443311   1 23666665553321  111  11  1233466777788888889887


Q ss_pred             cc
Q 000869          277 GG  278 (1247)
Q Consensus       277 ~~  278 (1247)
                      ..
T Consensus       349 ~~  350 (365)
T TIGR02928       349 AE  350 (365)
T ss_pred             EE
Confidence            53

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.

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=98.13  E-value=2.3e-07  Score=112.10  Aligned_cols=96  Identities=20%  Similarity=0.201  Sum_probs=53.4

Q ss_pred             cccccEEEEccCcccccccchhHHhhhcccCeeeeccc-cccceeeccCCCCCCCcCceeccccCceecccCCccccccC
Q 000869          812 FQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACC-ERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYP  890 (1247)
Q Consensus       812 ~~~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~L~l~~c-~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~  890 (1247)
                      +++|+.|.+.+|..++...-......++.|++|++++| ..........     ......+++|+.|.+..|..+.+...
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~-----~~~~~~~~~L~~l~l~~~~~isd~~l  261 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLL-----LLLLSICRKLKSLDLSGCGLVTDIGL  261 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHh-----hhhhhhcCCcCccchhhhhccCchhH
Confidence            56677777777777766322345566777777777774 2221111000     01122346667777776666555544


Q ss_pred             CCCcCCCCCccEEEEecCCcce
Q 000869          891 GMHTSEWPALKVLNVLACDQVT  912 (1247)
Q Consensus       891 ~~~~~~~~~L~~L~i~~C~~L~  912 (1247)
                      ......|++|+.|.+.+|..++
T Consensus       262 ~~l~~~c~~L~~L~l~~c~~lt  283 (482)
T KOG1947|consen  262 SALASRCPNLETLSLSNCSNLT  283 (482)
T ss_pred             HHHHhhCCCcceEccCCCCccc
Confidence            3344446677777766676654

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=98.13  E-value=3.1e-07  Score=106.68  Aligned_cols=189  Identities=23%  Similarity=0.308  Sum_probs=108.6

Q ss_pred             cceEEEccCCccccccC-cCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEc
Q 000869          323 KCYAISIRDSSIHELLE-GLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL  401 (1247)
Q Consensus       323 ~~~~l~l~~~~i~~~~~-~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L  401 (1247)
                      .+..+++..|.|..+.. ...+..|..|++.+|.+....    ..+..+.+|++|++++|.|+.+. .+..+..|+.|++
T Consensus        73 ~l~~l~l~~n~i~~~~~~l~~~~~l~~l~l~~n~i~~i~----~~l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l  147 (414)
T KOG0531|consen   73 SLKELNLRQNLIAKILNHLSKLKSLEALDLYDNKIEKIE----NLLSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNL  147 (414)
T ss_pred             hHHhhccchhhhhhhhcccccccceeeeeccccchhhcc----cchhhhhcchheecccccccccc-chhhccchhhhee
Confidence            34444455555555333 335677777777777666322    11456777777777777777663 3566666777777


Q ss_pred             cCcCCCCcccccCCCCCcEEEccCCCCCcCchh-hcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCcccccc
Q 000869          402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWED  480 (1247)
Q Consensus       402 ~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~  480 (1247)
                      ++|.++.+..+..++.|+.+++++|.+..+... ...+.+|+.+.+.+| .+..+..  +..+..+..+++..+.+.   
T Consensus       148 ~~N~i~~~~~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n-~i~~i~~--~~~~~~l~~~~l~~n~i~---  221 (414)
T KOG0531|consen  148 SGNLISDISGLESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGN-SIREIEG--LDLLKKLVLLSLLDNKIS---  221 (414)
T ss_pred             ccCcchhccCCccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCC-chhcccc--hHHHHHHHHhhcccccce---
Confidence            777777777677777777777777777666543 466677777777776 4444321  333344444444444433   


Q ss_pred             CCCCcccccccccccCCCCC--CcEEEEeecCCCCCCchh-hccccceeeEEecC
Q 000869          481 EGPNSETINSRLDELMHLPR--LTTLEVHVKNDNILPEGF-FARKLERFKISVGE  532 (1247)
Q Consensus       481 ~~~~~~~~~~~~~~l~~l~~--L~~L~l~~~~~~~~~~~~-~~~~L~~l~i~~~~  532 (1247)
                                .+..+..+..  |+.+.+..+.+...+..+ .+..+..+++..+.
T Consensus       222 ----------~~~~l~~~~~~~L~~l~l~~n~i~~~~~~~~~~~~l~~l~~~~n~  266 (414)
T KOG0531|consen  222 ----------KLEGLNELVMLHLRELYLSGNRISRSPEGLENLKNLPVLDLSSNR  266 (414)
T ss_pred             ----------eccCcccchhHHHHHHhcccCccccccccccccccccccchhhcc
Confidence                      1222222232  666677766666553222 44455555544444

>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=98.11  E-value=7.5e-06  Score=87.76  Aligned_cols=165  Identities=18%  Similarity=0.241  Sum_probs=84.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHH---------H----HHHHhCCCc-------cccchHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQ---------A----IAEKLGLVL-------QEETESSRA   61 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~---------~----i~~~l~~~~-------~~~~~~~~~   61 (1247)
                      .|+|||+|++++.+...... + .++|+..........+..         .    +...+....       .........
T Consensus        29 rg~GKTsLl~~~~~~~~~~~-~-~~~y~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l  106 (234)
T PF01637_consen   29 RGSGKTSLLKEFINELKEKG-Y-KVVYIDFLEESNESSLRSFIEETSLADELSEALGISIPSITLEKISKDLSEDSFSAL  106 (234)
T ss_dssp             TTSSHHHHHHHHHHHCT--E-E-CCCHHCCTTBSHHHHHHHHHHHHHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--H
T ss_pred             CcCCHHHHHHHHHHHhhhcC-C-cEEEEecccchhhhHHHHHHHHHHHHHHHHHHHhhhcccccchhhhhcchhhHHHHH
Confidence            69999999999999875321 2 455555443332221111         1    222221110       111234444


Q ss_pred             HHHHHHHhc-CCeEEEEEeCCCCcc-cc----------hhhccCCCCCCCCcEEEEecCChhhhhh--------cCCcce
Q 000869           62 SRLHEQLKR-EEKILIILDNIWKRV-DL----------ETVGIPFGDDHRGCKLLLTARDRTVLFS--------MGSEKN  121 (1247)
Q Consensus        62 ~~~~~~l~~-~~~~LlvlDd~~~~~-~~----------~~l~~~~~~~~~~~~vliTtR~~~~~~~--------~~~~~~  121 (1247)
                      ..+.+.+.+ +++++||+|+++... ..          ..+........+.+.|+++|. ..+...        .+....
T Consensus       107 ~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~~S~-~~~~~~~~~~~~~~~~~~~~  185 (234)
T PF01637_consen  107 ERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLSQQNVSIVITGSS-DSLMEEFLDDKSPLFGRFSH  185 (234)
T ss_dssp             HHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH----TTEEEEEEESS-HHHHHHTT-TTSTTTT---E
T ss_pred             HHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccccCCceEEEECCc-hHHHHHhhcccCccccccce
Confidence            556666554 356999999998765 11          112222222333444444444 433322        234456


Q ss_pred             EEcCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHH
Q 000869          122 FLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       122 ~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      +.+++|+.+++++++...+.+...-+...+..++|++.+||+|..|..
T Consensus       186 ~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  186 IELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             EEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            999999999999999998743311122456789999999999988764

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

>PLN03150 hypothetical protein; Provisional

Probab=98.10  E-value=6.2e-06  Score=100.30  Aligned_cols=102  Identities=24%  Similarity=0.379  Sum_probs=69.0

Q ss_pred             CcEEEccCCCCc-cCCcccccCCCCcEEEccCcCCCC-c-ccccCCCCCcEEEccCCCCC-cCchhhcCCCCCcEEeccC
Q 000869          373 LKVVDFCRMQFF-SLPPSIDHLLNLQTLCLDQCILGD-V-AIIGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLSN  448 (1247)
Q Consensus       373 Lr~L~Ls~~~i~-~lp~~l~~l~~L~~L~L~~~~l~~-~-~~~~~L~~L~~L~L~~~~i~-~lp~~i~~L~~L~~L~L~~  448 (1247)
                      ++.|+|++|.+. .+|..++++++|+.|+|++|.+.. + ..++.+++|++|+|++|.+. .+|..+++|++|++|+|++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~  499 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNG  499 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcC
Confidence            667777777776 567777777777777777777753 3 46777777777777777776 6677777777777777777


Q ss_pred             CCCCcccChhhhcCC-CCCCEEEeecCc
Q 000869          449 CFKLKVIAPNVISSL-IRLEELYMSNCF  475 (1247)
Q Consensus       449 ~~~l~~~~~~~~~~L-~~L~~L~l~~~~  475 (1247)
                      | .+....|..++.+ .++..+++.+|.
T Consensus       500 N-~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        500 N-SLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             C-cccccCChHHhhccccCceEEecCCc
Confidence            7 4544334445442 355566666553

>PLN03150 hypothetical protein; Provisional

Probab=98.09  E-value=8.2e-06  Score=99.25  Aligned_cols=107  Identities=21%  Similarity=0.397  Sum_probs=91.4

Q ss_pred             CccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCc-cCCcccccCCCCcEEEccCcCCCC-c-ccccCCCCCcEE
Q 000869          345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSIDHLLNLQTLCLDQCILGD-V-AIIGKLKNLEIL  421 (1247)
Q Consensus       345 ~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~-~lp~~l~~l~~L~~L~L~~~~l~~-~-~~~~~L~~L~~L  421 (1247)
                      .++.|+|++|.+.+.+  |.. +..+++|+.|+|++|.+. .+|..++.+++|++|+|++|.+.. + ..++++++|++|
T Consensus       419 ~v~~L~L~~n~L~g~i--p~~-i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L  495 (623)
T PLN03150        419 FIDGLGLDNQGLRGFI--PND-ISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRIL  495 (623)
T ss_pred             EEEEEECCCCCccccC--CHH-HhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEE
Confidence            4788999999987655  554 689999999999999998 789999999999999999999874 3 789999999999


Q ss_pred             EccCCCCC-cCchhhcCC-CCCcEEeccCCCCCcc
Q 000869          422 SFSGSGIV-KLPEELGQL-TKLRHLDLSNCFKLKV  454 (1247)
Q Consensus       422 ~L~~~~i~-~lp~~i~~L-~~L~~L~L~~~~~l~~  454 (1247)
                      +|++|.+. .+|..++.+ .++..+++.+|..+..
T Consensus       496 ~Ls~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~  530 (623)
T PLN03150        496 NLNGNSLSGRVPAALGGRLLHRASFNFTDNAGLCG  530 (623)
T ss_pred             ECcCCcccccCChHHhhccccCceEEecCCccccC
Confidence            99999887 889888764 5778899988854433

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.08  E-value=1.4e-07  Score=95.08  Aligned_cols=119  Identities=20%  Similarity=0.249  Sum_probs=71.7

Q ss_pred             ccCCccceecccccccccccccccccccCccccccEEEEccCcccccccchhHHhhhcccCeeeeccccccceeeccCCC
Q 000869          782 VFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGT  861 (1247)
Q Consensus       782 ~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~L~l~~c~~l~~i~~~~~~  861 (1247)
                      +..+|+.|.+.++.+.+--...     +..-.+|+.|+|+.|+.++.-...-++.+++.|.+|+|+.|...++.+..   
T Consensus       208 ~C~kLk~lSlEg~~LdD~I~~~-----iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv---  279 (419)
T KOG2120|consen  208 QCSKLKNLSLEGLRLDDPIVNT-----IAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTV---  279 (419)
T ss_pred             HHHhhhhccccccccCcHHHHH-----HhccccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhH---
Confidence            3677888888888665422111     12456799999999999998766667889999999999999865544221   


Q ss_pred             CCCCcCceeccccCceecccCCc-cccccCCCCcCCCCCccEEEEecCCcce
Q 000869          862 DDQVTPNFVFPGLTTLRLIGLPK-LKSLYPGMHTSEWPALKVLNVLACDQVT  912 (1247)
Q Consensus       862 ~~~~~~~~~~~~L~~L~l~~c~~-L~~~~~~~~~~~~~~L~~L~i~~C~~L~  912 (1247)
                          .....-++|+.|.|+||.. +..-........||.|.+|++++|..++
T Consensus       280 ----~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~  327 (419)
T KOG2120|consen  280 ----AVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLK  327 (419)
T ss_pred             ----HHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccC
Confidence                1111235666666666642 1111111122334555555555554443

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.05  E-value=1.6e-07  Score=94.66  Aligned_cols=89  Identities=19%  Similarity=0.107  Sum_probs=56.3

Q ss_pred             cccEEEEccCcccccccchhHHhhhcccCeeeeccccccceeeccCCCCCCCcCceeccccCceecccCCccccccCCCC
Q 000869          814 NLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMH  893 (1247)
Q Consensus       814 ~L~~L~l~~C~~L~~l~~~~~l~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~~~~~~  893 (1247)
                      .|++|++++ ..++......++..+.+|+.|.|.+.. +.+-..        .....-.+|+.|+|+.|..+++......
T Consensus       186 Rlq~lDLS~-s~it~stl~~iLs~C~kLk~lSlEg~~-LdD~I~--------~~iAkN~~L~~lnlsm~sG~t~n~~~ll  255 (419)
T KOG2120|consen  186 RLQHLDLSN-SVITVSTLHGILSQCSKLKNLSLEGLR-LDDPIV--------NTIAKNSNLVRLNLSMCSGFTENALQLL  255 (419)
T ss_pred             hhHHhhcch-hheeHHHHHHHHHHHHhhhhccccccc-cCcHHH--------HHHhccccceeeccccccccchhHHHHH
Confidence            366666665 344433334566777888888887754 222111        0111236788888888888887766556


Q ss_pred             cCCCCCccEEEEecCCcce
Q 000869          894 TSEWPALKVLNVLACDQVT  912 (1247)
Q Consensus       894 ~~~~~~L~~L~i~~C~~L~  912 (1247)
                      ...|+.|.+|+++.|.-.+
T Consensus       256 ~~scs~L~~LNlsWc~l~~  274 (419)
T KOG2120|consen  256 LSSCSRLDELNLSWCFLFT  274 (419)
T ss_pred             HHhhhhHhhcCchHhhccc
Confidence            6678888888888886544

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.99  E-value=6.5e-07  Score=103.98  Aligned_cols=172  Identities=23%  Similarity=0.232  Sum_probs=125.0

Q ss_pred             CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCcccccCCCCCcEE
Q 000869          342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEIL  421 (1247)
Q Consensus       342 ~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L  421 (1247)
                      .+..++.+.+..|.+...    ...+..+++|.+|++.+|.|..+...+..+.+|++|++++|.|+.+..+..+..|+.|
T Consensus        70 ~l~~l~~l~l~~n~i~~~----~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~~l~~l~~L~~L  145 (414)
T KOG0531|consen   70 SLTSLKELNLRQNLIAKI----LNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKEL  145 (414)
T ss_pred             HhHhHHhhccchhhhhhh----hcccccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhh
Confidence            456677777887776631    2335788999999999999998876688899999999999999999999999999999


Q ss_pred             EccCCCCCcCchhhcCCCCCcEEeccCCCCCcccCh-hhhcCCCCCCEEEeecCccccccCCCCcccccccccccCCCCC
Q 000869          422 SFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAP-NVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPR  500 (1247)
Q Consensus       422 ~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~-~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~  500 (1247)
                      ++++|.|..+. .+..+++|+.+++++| .+..+.+ . +..+.+++.+.+.+|.+.             .+..+..+..
T Consensus       146 ~l~~N~i~~~~-~~~~l~~L~~l~l~~n-~i~~ie~~~-~~~~~~l~~l~l~~n~i~-------------~i~~~~~~~~  209 (414)
T KOG0531|consen  146 NLSGNLISDIS-GLESLKSLKLLDLSYN-RIVDIENDE-LSELISLEELDLGGNSIR-------------EIEGLDLLKK  209 (414)
T ss_pred             eeccCcchhcc-CCccchhhhcccCCcc-hhhhhhhhh-hhhccchHHHhccCCchh-------------cccchHHHHH
Confidence            99999998775 4667999999999999 7777754 2 467888999998888654             3334444445


Q ss_pred             CcEEEEeecCCCCCCchhhccc--cceeeEEecCc
Q 000869          501 LTTLEVHVKNDNILPEGFFARK--LERFKISVGEA  533 (1247)
Q Consensus       501 L~~L~l~~~~~~~~~~~~~~~~--L~~l~i~~~~l  533 (1247)
                      +..+++..+.+..+........  |+.+.+..+.+
T Consensus       210 l~~~~l~~n~i~~~~~l~~~~~~~L~~l~l~~n~i  244 (414)
T KOG0531|consen  210 LVLLSLLDNKISKLEGLNELVMLHLRELYLSGNRI  244 (414)
T ss_pred             HHHhhcccccceeccCcccchhHHHHHHhcccCcc
Confidence            5555665555544332222222  55555555553

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.96  E-value=1.2e-07  Score=106.96  Aligned_cols=175  Identities=22%  Similarity=0.230  Sum_probs=124.5

Q ss_pred             cccceEEEccCCccccccCcCCC-CCccEEEccCCCCccccccchhhhc----------CCCCCcEEEccCCCCccCCcc
Q 000869          321 LRKCYAISIRDSSIHELLEGLEC-PQLEFLYMDSNGSSVEINVPEKFFT----------GMKKLKVVDFCRMQFFSLPPS  389 (1247)
Q Consensus       321 ~~~~~~l~l~~~~i~~~~~~~~~-~~L~~L~l~~n~~~~~~~l~~~~~~----------~l~~Lr~L~Ls~~~i~~lp~~  389 (1247)
                      .+.+|++-+.++.+........+ ..|++|..++. ...    -..+|.          ..-.|.+.++++|.+..+..+
T Consensus       108 F~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~S-l~A----l~~v~ascggd~~ns~~Wn~L~~a~fsyN~L~~mD~S  182 (1096)
T KOG1859|consen  108 FRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNS-LDA----LRHVFASCGGDISNSPVWNKLATASFSYNRLVLMDES  182 (1096)
T ss_pred             ccceeeEEecCcchhhhhhhHHHHHhhhhhhhhcc-HHH----HHHHHHHhccccccchhhhhHhhhhcchhhHHhHHHH
Confidence            45788888888776653322221 23444443322 110    011111          124588888999999888888


Q ss_pred             cccCCCCcEEEccCcCCCCcccccCCCCCcEEEccCCCCCcCchh-hcCCCCCcEEeccCCCCCcccChhhhcCCCCCCE
Q 000869          390 IDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEE  468 (1247)
Q Consensus       390 l~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~  468 (1247)
                      +.-++.|+.|+|++|++..+..+..|.+|++|||++|.++.+|.- ...+ +|+.|++++| .++.+  ..+.+|++|+.
T Consensus       183 Lqll~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~lrnN-~l~tL--~gie~LksL~~  258 (1096)
T KOG1859|consen  183 LQLLPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLNLRNN-ALTTL--RGIENLKSLYG  258 (1096)
T ss_pred             HHHHHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhh-hheeeeeccc-HHHhh--hhHHhhhhhhc
Confidence            899999999999999999999999999999999999999988852 2233 3999999999 78877  33889999999


Q ss_pred             EEeecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCCCC
Q 000869          469 LYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNIL  514 (1247)
Q Consensus       469 L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  514 (1247)
                      |+++.|-+.          ....+.-+..|..|+.|.+.+|.+.--
T Consensus       259 LDlsyNll~----------~hseL~pLwsLs~L~~L~LeGNPl~c~  294 (1096)
T KOG1859|consen  259 LDLSYNLLS----------EHSELEPLWSLSSLIVLWLEGNPLCCA  294 (1096)
T ss_pred             cchhHhhhh----------cchhhhHHHHHHHHHHHhhcCCccccC
Confidence            999988665          223455566677888888888876543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=97.94  E-value=0.00013  Score=81.83  Aligned_cols=240  Identities=13%  Similarity=0.059  Sum_probs=123.2

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCc-cccch-----HHHHHHHHHHHhcCCeE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL-QEETE-----SSRASRLHEQLKREEKI   74 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~-~~~~~-----~~~~~~~~~~l~~~~~~   74 (1247)
                      .+|+|||++|+.+++.....     +.++.... ......+..+...++... --.++     ....+.+...+. +.+.
T Consensus        59 ppG~GKT~la~~ia~~l~~~-----~~~~~~~~-~~~~~~l~~~l~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e-~~~~  131 (328)
T PRK00080         59 PPGLGKTTLANIIANEMGVN-----IRITSGPA-LEKPGDLAAILTNLEEGDVLFIDEIHRLSPVVEEILYPAME-DFRL  131 (328)
T ss_pred             CCCccHHHHHHHHHHHhCCC-----eEEEeccc-ccChHHHHHHHHhcccCCEEEEecHhhcchHHHHHHHHHHH-hcce
Confidence            47999999999999987532     22222221 111122233333332211 00011     111122233332 5566


Q ss_pred             EEEEeCCCCcccchhhccCCCCCCCCcEEEEecCChhhhhhc--CCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHH
Q 000869           75 LIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM--GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKST  152 (1247)
Q Consensus        75 LlvlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~~--~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~  152 (1247)
                      .+|+|+......+..   .++   ..+-|..|+|...+...+  +....+++++++.++..+++...++.... .-.++.
T Consensus       132 ~~~l~~~~~~~~~~~---~l~---~~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~-~~~~~~  204 (328)
T PRK00080        132 DIMIGKGPAARSIRL---DLP---PFTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGV-EIDEEG  204 (328)
T ss_pred             eeeeccCccccceee---cCC---CceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCC-CcCHHH
Confidence            667766554433221   111   235566677755443321  12357899999999999999999854322 234567


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHhcCChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHH-hccCCC
Q 000869          153 ATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFL-LCSLMG  231 (1247)
Q Consensus       153 ~~~i~~~~~g~Plai~~~a~~l~~~~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~-~~a~fp  231 (1247)
                      +..|++.|+|.|-.+..+...+.     .|....+   ...+ . ...-......+...+..|++. .+..+. ....|+
T Consensus       205 ~~~ia~~~~G~pR~a~~~l~~~~-----~~a~~~~---~~~I-~-~~~v~~~l~~~~~~~~~l~~~-~~~~l~~~~~~~~  273 (328)
T PRK00080        205 ALEIARRSRGTPRIANRLLRRVR-----DFAQVKG---DGVI-T-KEIADKALDMLGVDELGLDEM-DRKYLRTIIEKFG  273 (328)
T ss_pred             HHHHHHHcCCCchHHHHHHHHHH-----HHHHHcC---CCCC-C-HHHHHHHHHHhCCCcCCCCHH-HHHHHHHHHHHcC
Confidence            89999999999954444433322     2211110   0111 0 000112334445566788877 466665 666676


Q ss_pred             CC-cChhHHHHHHHhcCcccccccHHHHHHHHHHHHH-HHhhcceeec
Q 000869          232 NE-IATSDLFKYCMCLGIFKGVDTMENARTNFYALIH-QLRDCFLLLG  277 (1247)
Q Consensus       232 ~~-~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~-~L~~~~l~~~  277 (1247)
                      .+ +..+.+....   |     .....++    +.++ .|++.+|++.
T Consensus       274 ~~~~~~~~~a~~l---g-----~~~~~~~----~~~e~~Li~~~li~~  309 (328)
T PRK00080        274 GGPVGLDTLAAAL---G-----EERDTIE----DVYEPYLIQQGFIQR  309 (328)
T ss_pred             CCceeHHHHHHHH---C-----CCcchHH----HHhhHHHHHcCCccc
Confidence            54 6665553332   1     1112222    2355 7889999964

>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=97.90  E-value=1.1e-05  Score=58.48  Aligned_cols=39  Identities=33%  Similarity=0.560  Sum_probs=21.4

Q ss_pred             CCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCcc
Q 000869          372 KLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVA  410 (1247)
Q Consensus       372 ~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~~  410 (1247)
                      +|++|++++|.|+.+|..++++++|++|++++|.+++++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            456666666666655555556666666666655555443

...

>PRK06893 DNA replication initiation factor; Validated

Probab=97.89  E-value=5.5e-05  Score=79.53  Aligned_cols=145  Identities=18%  Similarity=0.132  Sum_probs=88.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++....+  ...+.|+++.....   ..                    ..+.+.+  .+.-+||+||+
T Consensus        48 ~G~GKThL~~ai~~~~~~~--~~~~~y~~~~~~~~---~~--------------------~~~~~~~--~~~dlLilDDi  100 (229)
T PRK06893         48 KSSGKSHLLKAVSNHYLLN--QRTAIYIPLSKSQY---FS--------------------PAVLENL--EQQDLVCLDDL  100 (229)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCCeEEeeHHHhhh---hh--------------------HHHHhhc--ccCCEEEEeCh
Confidence            6999999999999987644  45678887642100   00                    0112222  23458999999


Q ss_pred             CCc---ccch-hhccCCCCC-CCCcEEEE-ecCC---------hhhhhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           82 WKR---VDLE-TVGIPFGDD-HRGCKLLL-TARD---------RTVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        82 ~~~---~~~~-~l~~~~~~~-~~~~~vli-TtR~---------~~~~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +..   .+|+ .+...+... ..|..+|| |++.         +.+..++.....++++++++++.++++.+.+.... .
T Consensus       101 ~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~a~~~~-l  179 (229)
T PRK06893        101 QAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRNAYQRG-I  179 (229)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHHHHHcC-C
Confidence            864   2333 111111111 23455544 4543         34444556677999999999999999999884222 1


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      .-.+++..-|++.+.|..-.+..+-..+
T Consensus       180 ~l~~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        180 ELSDEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             CCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            2234677888888888776655554433

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=97.88  E-value=0.00041  Score=77.34  Aligned_cols=240  Identities=14%  Similarity=0.068  Sum_probs=122.9

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCc----c--ccchHHHHHHHHHHHhcCCeE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL----Q--EETESSRASRLHEQLKREEKI   74 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~----~--~~~~~~~~~~~~~~l~~~~~~   74 (1247)
                      .+|+|||++|++++++....  +   ..+..........+ ...+..++...    +  +.-.....+.+...+. +.+.
T Consensus        38 p~G~GKT~la~~ia~~~~~~--~---~~~~~~~~~~~~~l-~~~l~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~-~~~~  110 (305)
T TIGR00635        38 PPGLGKTTLAHIIANEMGVN--L---KITSGPALEKPGDL-AAILTNLEEGDVLFIDEIHRLSPAVEELLYPAME-DFRL  110 (305)
T ss_pred             CCCCCHHHHHHHHHHHhCCC--E---EEeccchhcCchhH-HHHHHhcccCCEEEEehHhhhCHHHHHHhhHHHh-hhhe
Confidence            47999999999999987532  2   22222111112222 22222232211    0  0001112233333333 5666


Q ss_pred             EEEEeCCCCcccchhhccCCCCCCCCcEEEEecCChhhhhhc--CCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHH
Q 000869           75 LIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSM--GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKST  152 (1247)
Q Consensus        75 LlvlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~~--~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~  152 (1247)
                      .+|+|+.....++..   ..+   +.+-|..|||...+...+  +....+++++++.++..+++.+.++.... .-..+.
T Consensus       111 ~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~-~~~~~a  183 (305)
T TIGR00635       111 DIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNV-EIEPEA  183 (305)
T ss_pred             eeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCC-CcCHHH
Confidence            677777655544432   122   245566777765443321  12457889999999999999998853222 223567


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHhcCChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHH-hccCCC
Q 000869          153 ATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFL-LCSLMG  231 (1247)
Q Consensus       153 ~~~i~~~~~g~Plai~~~a~~l~~~~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~-~~a~fp  231 (1247)
                      +..|++.++|.|-.+..+...+.       .. ........+ . ...-......+...|..++.. .+..+. ..+.++
T Consensus       184 l~~ia~~~~G~pR~~~~ll~~~~-------~~-a~~~~~~~i-t-~~~v~~~l~~l~~~~~~l~~~-~~~~L~al~~~~~  252 (305)
T TIGR00635       184 ALEIARRSRGTPRIANRLLRRVR-------DF-AQVRGQKII-N-RDIALKALEMLMIDELGLDEI-DRKLLSVLIEQFQ  252 (305)
T ss_pred             HHHHHHHhCCCcchHHHHHHHHH-------HH-HHHcCCCCc-C-HHHHHHHHHHhCCCCCCCCHH-HHHHHHHHHHHhC
Confidence            78999999999966655444322       10 000011101 0 000011222244556777776 455555 556665


Q ss_pred             CC-cChhHHHHHHHhcCcccccccHHHHHHHHHHHHH-HHhhcceeec
Q 000869          232 NE-IATSDLFKYCMCLGIFKGVDTMENARTNFYALIH-QLRDCFLLLG  277 (1247)
Q Consensus       232 ~~-~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~-~L~~~~l~~~  277 (1247)
                      .+ +..+.+....   |.         ........++ .|++.++++.
T Consensus       253 ~~~~~~~~ia~~l---g~---------~~~~~~~~~e~~Li~~~li~~  288 (305)
T TIGR00635       253 GGPVGLKTLAAAL---GE---------DADTIEDVYEPYLLQIGFLQR  288 (305)
T ss_pred             CCcccHHHHHHHh---CC---------CcchHHHhhhHHHHHcCCccc
Confidence            43 5554443221   11         1122233466 5899999964

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.

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

Probab=97.83  E-value=6.2e-05  Score=71.86  Aligned_cols=106  Identities=26%  Similarity=0.344  Sum_probs=75.8

Q ss_pred             CCccHHHHHHHHHHHhhhcc---CCCeEEEEEcCCccCHHHHHHHHHHHhCCCccc-cchHHHHHHHHHHHhcCCeEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDK---LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE-ETESSRASRLHEQLKREEKILII   77 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~---~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~~~l~~~~~~Llv   77 (1247)
                      +|+|||+++++++++.....   .-..++|+.+....+...+.+.++..++..... ....+....+.+.+.+.+..+||
T Consensus        13 ~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l~~~~~~~lv   92 (131)
T PF13401_consen   13 PGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDALDRRRVVLLV   92 (131)
T ss_dssp             TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHHHHCTEEEEE
T ss_pred             CCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHHHhcCCeEEE
Confidence            79999999999999875311   124678999988889999999999999887665 44555557777777766678999


Q ss_pred             EeCCCCc-c--cchhhccCCCCCCCCcEEEEecCC
Q 000869           78 LDNIWKR-V--DLETVGIPFGDDHRGCKLLLTARD  109 (1247)
Q Consensus        78 lDd~~~~-~--~~~~l~~~~~~~~~~~~vliTtR~  109 (1247)
                      +|+++.. .  .++.+... .. ..+.+||+..+.
T Consensus        93 iDe~~~l~~~~~l~~l~~l-~~-~~~~~vvl~G~~  125 (131)
T PF13401_consen   93 IDEADHLFSDEFLEFLRSL-LN-ESNIKVVLVGTP  125 (131)
T ss_dssp             EETTHHHHTHHHHHHHHHH-TC-SCBEEEEEEESS
T ss_pred             EeChHhcCCHHHHHHHHHH-Hh-CCCCeEEEEECh
Confidence            9999865 2  23333221 11 556777777655

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.83  E-value=9.7e-06  Score=84.57  Aligned_cols=40  Identities=23%  Similarity=0.254  Sum_probs=19.6

Q ss_pred             CCCCccEEEccCCCCcccc-ccchhhhcCCCCCcEEEccCC
Q 000869          342 ECPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRM  381 (1247)
Q Consensus       342 ~~~~L~~L~l~~n~~~~~~-~l~~~~~~~l~~Lr~L~Ls~~  381 (1247)
                      ....++.++++||.+...- ......+...+.||..++++-
T Consensus        28 ~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~   68 (382)
T KOG1909|consen   28 PMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDM   68 (382)
T ss_pred             ccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhh
Confidence            4556666666666554210 011233345555666665543

>PF13173 AAA_14: AAA domain

Probab=97.81  E-value=3.6e-05  Score=72.69  Aligned_cols=111  Identities=22%  Similarity=0.231  Sum_probs=75.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+||||++++++++..   ....++|+++.+.........+                ..+.+.+.. .+++.+++||++
T Consensus        11 R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~-~~~~~~i~iDEi   70 (128)
T PF13173_consen   11 RGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLADPD----------------LLEYFLELI-KPGKKYIFIDEI   70 (128)
T ss_pred             CCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhh-ccCCcEEEEehh
Confidence            58999999999998765   2467888887765542211000                112223322 247889999999


Q ss_pred             CCcccchhhccCCCCCCCCcEEEEecCChhhhhh------cCCcceEEcCCCCHHHH
Q 000869           82 WKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFS------MGSEKNFLVDILKEEEA  132 (1247)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~------~~~~~~~~l~~l~~~ea  132 (1247)
                      +...+|......+...+...+|++|+........      .+....+++.||+-.|-
T Consensus        71 q~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   71 QYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             hhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            9988887766566665567899999988877642      13345788999987763

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.79  E-value=1.2e-05  Score=96.86  Aligned_cols=127  Identities=20%  Similarity=0.214  Sum_probs=84.0

Q ss_pred             hcccceEEEccCCcc--ccccC--cCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCC
Q 000869          320 ALRKCYAISIRDSSI--HELLE--GLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLN  395 (1247)
Q Consensus       320 ~~~~~~~l~l~~~~i--~~~~~--~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~  395 (1247)
                      ..++++++++.+...  ...+.  +.-+|.|++|.+.+-......  ....+..+++|+.||+|+++++.+ ..+++|++
T Consensus       120 sr~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~d--F~~lc~sFpNL~sLDIS~TnI~nl-~GIS~Lkn  196 (699)
T KOG3665|consen  120 SRQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDD--FSQLCASFPNLRSLDISGTNISNL-SGISRLKN  196 (699)
T ss_pred             HHHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchh--HHHHhhccCccceeecCCCCccCc-HHHhcccc
Confidence            355778888877432  22222  226888888888875543221  245567888888888888888877 67888888


Q ss_pred             CcEEEccCcCCCC---cccccCCCCCcEEEccCCCCCcCchh-------hcCCCCCcEEeccCC
Q 000869          396 LQTLCLDQCILGD---VAIIGKLKNLEILSFSGSGIVKLPEE-------LGQLTKLRHLDLSNC  449 (1247)
Q Consensus       396 L~~L~L~~~~l~~---~~~~~~L~~L~~L~L~~~~i~~lp~~-------i~~L~~L~~L~L~~~  449 (1247)
                      |++|.+.+=.++.   +..+.+|++|++||+|......-+.-       -..|++||.||.|++
T Consensus       197 Lq~L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgT  260 (699)
T KOG3665|consen  197 LQVLSMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGT  260 (699)
T ss_pred             HHHHhccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCc
Confidence            8888877655543   36677888888888887744433311       123667777777665

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.78  E-value=4.3e-06  Score=87.14  Aligned_cols=135  Identities=21%  Similarity=0.264  Sum_probs=60.7

Q ss_pred             CCCCccEEEccCCCCcccc-ccchhhhcCCCCCcEEEccCCCCccC--------------CcccccCCCCcEEEccCcCC
Q 000869          342 ECPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSL--------------PPSIDHLLNLQTLCLDQCIL  406 (1247)
Q Consensus       342 ~~~~L~~L~l~~n~~~~~~-~l~~~~~~~l~~Lr~L~Ls~~~i~~l--------------p~~l~~l~~L~~L~L~~~~l  406 (1247)
                      .+++|++|+|+.|-+.... .-..+.++.+..|+.|.|.+|.+...              ..-+.+-..||++...+|++
T Consensus        90 ~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrl  169 (382)
T KOG1909|consen   90 GCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRL  169 (382)
T ss_pred             cCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecccc
Confidence            4555555555555443221 11123344455555555555554311              11123334555555555554


Q ss_pred             CCc------ccccCCCCCcEEEccCCCCC-----cCchhhcCCCCCcEEeccCCCCCccc----ChhhhcCCCCCCEEEe
Q 000869          407 GDV------AIIGKLKNLEILSFSGSGIV-----KLPEELGQLTKLRHLDLSNCFKLKVI----APNVISSLIRLEELYM  471 (1247)
Q Consensus       407 ~~~------~~~~~L~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~L~~~~~l~~~----~~~~~~~L~~L~~L~l  471 (1247)
                      .+-      ..+...+.|+.+.+..|.|.     -+-..+..+++|+.|||..| .++.-    ....+..+++|++|++
T Consensus       170 en~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DN-tft~egs~~LakaL~s~~~L~El~l  248 (382)
T KOG1909|consen  170 ENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDN-TFTLEGSVALAKALSSWPHLRELNL  248 (382)
T ss_pred             ccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccc-hhhhHHHHHHHHHhcccchheeecc
Confidence            331      23444455555555555443     11223455555555555555 22211    0122334455555555


Q ss_pred             ecCccc
Q 000869          472 SNCFVE  477 (1247)
Q Consensus       472 ~~~~~~  477 (1247)
                      +.|.+.
T Consensus       249 ~dcll~  254 (382)
T KOG1909|consen  249 GDCLLE  254 (382)
T ss_pred             cccccc
Confidence            555443

>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=97.75  E-value=3.1e-05  Score=56.15  Aligned_cols=39  Identities=46%  Similarity=0.616  Sum_probs=24.8

Q ss_pred             CCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCccc
Q 000869          416 KNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVI  455 (1247)
Q Consensus       416 ~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~  455 (1247)
                      ++|++|++++|.|+.+|..+++|++|++|++++| .++.+
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i   39 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDI   39 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBE
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCC
Confidence            3566777777777777666777777777777776 55555

...

>PRK13342 recombination factor protein RarA; Reviewed

Probab=97.71  E-value=0.0019  Score=74.75  Aligned_cols=211  Identities=13%  Similarity=0.143  Sum_probs=108.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+||||+|+.+++.....  |   +.++.... ... ..+.+.                +........+++.+|++|++
T Consensus        45 pGtGKTtLA~~ia~~~~~~--~---~~l~a~~~-~~~-~ir~ii----------------~~~~~~~~~g~~~vL~IDEi  101 (413)
T PRK13342         45 PGTGKTTLARIIAGATDAP--F---EALSAVTS-GVK-DLREVI----------------EEARQRRSAGRRTILFIDEI  101 (413)
T ss_pred             CCCCHHHHHHHHHHHhCCC--E---EEEecccc-cHH-HHHHHH----------------HHHHHhhhcCCceEEEEech
Confidence            7999999999999876422  2   22222111 111 111111                11111122368899999999


Q ss_pred             CCc--ccchhhccCCCCCCCCcEEEE--ecCChhhh---hhcCCcceEEcCCCCHHHHHHHHHHHhCCC-CCC-hhhHHH
Q 000869           82 WKR--VDLETVGIPFGDDHRGCKLLL--TARDRTVL---FSMGSEKNFLVDILKEEEAWRLFKLMAGDD-VEN-RELKST  152 (1247)
Q Consensus        82 ~~~--~~~~~l~~~~~~~~~~~~vli--TtR~~~~~---~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~-~~~-~~~~~~  152 (1247)
                      +..  .+.+.+...+.   .+..++|  ||.+....   ........+.+.+++.++..+++.+.+... ... .-..+.
T Consensus       102 ~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~a  178 (413)
T PRK13342        102 HRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQVFELKPLSEEDIEQLLKRALEDKERGLVELDDEA  178 (413)
T ss_pred             hhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhccceeeEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHH
Confidence            865  34444443332   2444444  45544321   122344789999999999999999876321 111 223567


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHh---cC-ChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHHhcc
Q 000869          153 ATEVAKACKGLPIALTTIARALR---NK-SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCS  228 (1247)
Q Consensus       153 ~~~i~~~~~g~Plai~~~a~~l~---~~-~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~~~a  228 (1247)
                      ...|++.++|.+..+..+.....   .. +.+.-..++.... ....+..+...++...+.-|...-+++  ...+....
T Consensus       179 l~~l~~~s~Gd~R~aln~Le~~~~~~~~It~~~v~~~~~~~~-~~~d~~~~~~~~~isa~~ks~rgsd~~--aal~~l~~  255 (413)
T PRK13342        179 LDALARLANGDARRALNLLELAALGVDSITLELLEEALQKRA-ARYDKDGDEHYDLISALHKSIRGSDPD--AALYYLAR  255 (413)
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHccCCCCHHHHHHHHhhhh-hccCCCccHHHHHHHHHHHHHhcCCHH--HHHHHHHH
Confidence            78899999999876655444332   11 4444444444321 111111112223445555555554443  33444444


Q ss_pred             CCCCCcChhHHHH
Q 000869          229 LMGNEIATSDLFK  241 (1247)
Q Consensus       229 ~fp~~~~~~~l~~  241 (1247)
                      +...|.+...+.+
T Consensus       256 ~l~~G~d~~~i~r  268 (413)
T PRK13342        256 MLEAGEDPLFIAR  268 (413)
T ss_pred             HHHcCCCHHHHHH
Confidence            4444444443333

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=97.70  E-value=0.00018  Score=76.36  Aligned_cols=145  Identities=17%  Similarity=0.176  Sum_probs=87.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+.++++....  ...++|+++....+..                       ..+...+  .+.-+||+||+
T Consensus        47 ~G~GKT~la~~~~~~~~~~--~~~~~~i~~~~~~~~~-----------------------~~~~~~~--~~~~lLvIDdi   99 (226)
T TIGR03420        47 SGSGKSHLLQAACAAAEER--GKSAIYLPLAELAQAD-----------------------PEVLEGL--EQADLVCLDDV   99 (226)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCcEEEEeHHHHHHhH-----------------------HHHHhhc--ccCCEEEEeCh
Confidence            7999999999999887533  4567788765432110                       0111112  22348999999


Q ss_pred             CCcc---c-chhhccCCCC-CCCCcEEEEecCChhh---------hhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRV---D-LETVGIPFGD-DHRGCKLLLTARDRTV---------LFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~---~-~~~l~~~~~~-~~~~~~vliTtR~~~~---------~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +...   . .+.+...+.. ...+.++|+||+....         ...+.....+++++++.++...++...+.... ..
T Consensus       100 ~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~i~l~~l~~~e~~~~l~~~~~~~~-~~  178 (226)
T TIGR03420       100 EAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLVFQLPPLSDEEKIAALQSRAARRG-LQ  178 (226)
T ss_pred             hhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCeeEecCCCCHHHHHHHHHHHHHHcC-CC
Confidence            8653   1 2223221111 1234478888875431         11222346799999999999999987662111 11


Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          148 ELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      -..+....+++.+.|.|..+..+...+
T Consensus       179 ~~~~~l~~L~~~~~gn~r~L~~~l~~~  205 (226)
T TIGR03420       179 LPDEVADYLLRHGSRDMGSLMALLDAL  205 (226)
T ss_pred             CCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            234667888888899987777665443

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.61  E-value=0.0019  Score=80.88  Aligned_cols=210  Identities=16%  Similarity=0.172  Sum_probs=126.6

Q ss_pred             cCCeEEEEEeCCCCccc-----chhhccCCC---CCCCCcEEEEecCChh--hhhhcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           70 REEKILIILDNIWKRVD-----LETVGIPFG---DDHRGCKLLLTARDRT--VLFSMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        70 ~~~~~LlvlDd~~~~~~-----~~~l~~~~~---~~~~~~~vliTtR~~~--~~~~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      +.++.++|+||++-.+.     ++.+.....   ......-.++|.+...  +.+.......+.|.||+..+.-.++...
T Consensus       152 ~~~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~  231 (849)
T COG3899         152 EEHPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAAT  231 (849)
T ss_pred             ccCCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHH
Confidence            46799999999964421     111211111   0001122333444431  1123234578999999999999999999


Q ss_pred             hCCCCCChhhHHHHHHHHHHcCCCchHHHHHHHHHhcC-------ChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHH
Q 000869          140 AGDDVENRELKSTATEVAKACKGLPIALTTIARALRNK-------SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSY  212 (1247)
Q Consensus       140 ~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l~~~-------~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy  212 (1247)
                      .+....  ...+....|+++..|+|+-+..+-.++...       +...|..-...+..      .+..+++-..+..-.
T Consensus       232 l~~~~~--~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~------~~~~~~vv~~l~~rl  303 (849)
T COG3899         232 LGCTKL--LPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGI------LATTDAVVEFLAARL  303 (849)
T ss_pred             hCCccc--ccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCC------chhhHHHHHHHHHHH
Confidence            975322  234678999999999999888887777543       34445433332221      222334566788999


Q ss_pred             cCCCchhHHHHHHhccCCCCCcChhHHHHHHHhcCcccccccHHHHHHHHHHHHHHHhhcceeecc-----C-CCC---c
Q 000869          213 NYLEGEKLKNIFLLCSLMGNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGG-----D-NNE---K  283 (1247)
Q Consensus       213 ~~L~~~~~~~~~~~~a~fp~~~~~~~l~~~w~~~g~~~~~~~~~~~~~~~~~~l~~L~~~~l~~~~-----~-~~~---~  283 (1247)
                      +.||+. .|+.+...|++...|+.+.|...+-..           .......+++.|.....+-..     . ...   +
T Consensus       304 ~kL~~~-t~~Vl~~AA~iG~~F~l~~La~l~~~~-----------~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y  371 (849)
T COG3899         304 QKLPGT-TREVLKAAACIGNRFDLDTLAALAEDS-----------PALEAAALLDALQEGLILPLSETYRFGSNVDIATY  371 (849)
T ss_pred             hcCCHH-HHHHHHHHHHhCccCCHHHHHHHHhhc-----------hHHHHHHHHHHhHhhceeccccccccccccchhhH
Confidence            999999 799999999999999988887665321           122223334444443333211     1 111   1


Q ss_pred             eeccHHHHHHHHHhhh
Q 000869          284 LSMHDVVRAVAISIAC  299 (1247)
Q Consensus       284 ~~~h~lv~~~~~~~~~  299 (1247)
                      --.|+.|++.|.....
T Consensus       372 ~F~H~~vqqaaY~~i~  387 (849)
T COG3899         372 KFLHDRVQQAAYNLIP  387 (849)
T ss_pred             HhhHHHHHHHHhccCc
Confidence            2459999988876544

>PF14516 AAA_35: AAA-like domain

Probab=97.56  E-value=0.015  Score=65.00  Aligned_cols=168  Identities=15%  Similarity=0.195  Sum_probs=97.5

Q ss_pred             CccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-----cCHHHH----HHHHHHHhCCCcccc-------ch-HHHHHHHH
Q 000869            3 GIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-----IDIKKI----QQAIAEKLGLVLQEE-------TE-SSRASRLH   65 (1247)
Q Consensus         3 GiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-----~~~~~~----~~~i~~~l~~~~~~~-------~~-~~~~~~~~   65 (1247)
                      .+|||++..++.+..+.. .| .++++++...     .+...+    ...+.++++....-.       .. ..-...+.
T Consensus        41 q~GKTSll~~l~~~l~~~-~~-~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~  118 (331)
T PF14516_consen   41 QMGKTSLLLRLLERLQQQ-GY-RCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFE  118 (331)
T ss_pred             cCCHHHHHHHHHHHHHHC-CC-EEEEEEeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHH
Confidence            589999999999888753 23 5668887542     234444    445556666543111       11 11112233


Q ss_pred             HHHhc--CCeEEEEEeCCCCccc--------chhhccCCCCC----CCCcE--EEEec-CChhhhh----hcCCcceEEc
Q 000869           66 EQLKR--EEKILIILDNIWKRVD--------LETVGIPFGDD----HRGCK--LLLTA-RDRTVLF----SMGSEKNFLV  124 (1247)
Q Consensus        66 ~~l~~--~~~~LlvlDd~~~~~~--------~~~l~~~~~~~----~~~~~--vliTt-R~~~~~~----~~~~~~~~~l  124 (1247)
                      +.+..  +++.+|+||+||..-.        +..++......    ....-  |++-+ +.-....    .+..+..++|
T Consensus       119 ~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L  198 (331)
T PF14516_consen  119 EYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIEL  198 (331)
T ss_pred             HHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEEEEEecCcccccccCCCCCCcccccceeC
Confidence            33332  6899999999986521        11111100000    00111  22222 1111111    1233458889


Q ss_pred             CCCCHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHHHHHHhcC
Q 000869          125 DILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNK  177 (1247)
Q Consensus       125 ~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l~~~  177 (1247)
                      ++|+.+|+..|..++...     .......+|.+.++|+|..+..++..+...
T Consensus       199 ~~Ft~~ev~~L~~~~~~~-----~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  199 PDFTPEEVQELAQRYGLE-----FSQEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             CCCCHHHHHHHHHhhhcc-----CCHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            999999999998887532     112338999999999999999999999765

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=97.54  E-value=0.001  Score=67.96  Aligned_cols=88  Identities=11%  Similarity=0.120  Sum_probs=59.5

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCCh-hhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDR-TVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~-~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++..  +..+.+...+......+.+|++|++. .+... ......+++.+++.++..+.+.+. |  .  
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~-g--i--  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ-G--I--  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc-C--C--
Confidence            56778999999875  23444544444444455566666544 22221 234568999999999999888887 3  1  


Q ss_pred             hhhHHHHHHHHHHcCCCch
Q 000869          147 RELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pl  165 (1247)
                        .++.+..|++.++|.|.
T Consensus       170 --~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       170 --SEEAAELLLALAGGSPG  186 (188)
T ss_pred             --CHHHHHHHHHHcCCCcc
Confidence              24678999999999885

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.

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.53  E-value=5e-05  Score=91.76  Aligned_cols=107  Identities=24%  Similarity=0.263  Sum_probs=78.4

Q ss_pred             CCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCc--cCCcccccCCCCcEEEccCcCCCCcccccCCCCCcE
Q 000869          343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF--SLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEI  420 (1247)
Q Consensus       343 ~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~--~lp~~l~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~  420 (1247)
                      -.+|++|++.|...... .++..+...++.|+.|.+++-.+.  .+-.-..++++|+.||+++++++.+..+++|++|++
T Consensus       121 r~nL~~LdI~G~~~~s~-~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~  199 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSN-GWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQV  199 (699)
T ss_pred             HHhhhhcCccccchhhc-cHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHH
Confidence            35788888888665432 446777778899999998887654  233345678888888888888888888888888888


Q ss_pred             EEccCCCCCcCc--hhhcCCCCCcEEeccCCC
Q 000869          421 LSFSGSGIVKLP--EELGQLTKLRHLDLSNCF  450 (1247)
Q Consensus       421 L~L~~~~i~~lp--~~i~~L~~L~~L~L~~~~  450 (1247)
                      |.+.+-.++.-.  ..+.+|++|++||+|..+
T Consensus       200 L~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~  231 (699)
T KOG3665|consen  200 LSMRNLEFESYQDLIDLFNLKKLRVLDISRDK  231 (699)
T ss_pred             HhccCCCCCchhhHHHHhcccCCCeeeccccc
Confidence            888776665322  356778888888888753

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.53  E-value=0.00014  Score=69.99  Aligned_cols=100  Identities=21%  Similarity=0.312  Sum_probs=58.9

Q ss_pred             CccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccc-cCCCCcEEEccCcCCCC---cccccCCCCCcE
Q 000869          345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSID-HLLNLQTLCLDQCILGD---VAIIGKLKNLEI  420 (1247)
Q Consensus       345 ~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~-~l~~L~~L~L~~~~l~~---~~~~~~L~~L~~  420 (1247)
                      ....++|++|.+.     -.+.|..++.|.+|.|.+|.|+.+-+.+. -+++|.+|.|.+|++..   +..+..++.|++
T Consensus        43 ~~d~iDLtdNdl~-----~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~  117 (233)
T KOG1644|consen   43 QFDAIDLTDNDLR-----KLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEY  117 (233)
T ss_pred             ccceecccccchh-----hcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccce
Confidence            3345566666544     11234566666666666666666644444 34456666666665543   345566667777


Q ss_pred             EEccCCCCCcCch----hhcCCCCCcEEeccCC
Q 000869          421 LSFSGSGIVKLPE----ELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       421 L~L~~~~i~~lp~----~i~~L~~L~~L~L~~~  449 (1247)
                      |.+-+|.++.-+.    -+.++++|++||..+.
T Consensus       118 Ltll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  118 LTLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             eeecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            7777776654432    2567777777777654

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.52  E-value=0.0013  Score=74.57  Aligned_cols=97  Identities=11%  Similarity=0.141  Sum_probs=62.9

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCCh-hhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~-~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  .++++...+.......++|++|.+. .+... ......+++++++.++..+.+...+.... .
T Consensus       118 ~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g-~  196 (363)
T PRK14961        118 SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTILSRCLQFKLKIISEEKIFNFLKYILIKES-I  196 (363)
T ss_pred             CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHHhhceEEeCCCCCHHHHHHHHHHHHHHcC-C
Confidence            456799999998763  3455544444444455666665443 33322 23457899999999999999988773211 1


Q ss_pred             hhhHHHHHHHHHHcCCCchHHH
Q 000869          147 RELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      .-.++.+..|++.++|.|..+.
T Consensus       197 ~i~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        197 DTDEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHH
Confidence            1234567889999999885433

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.50  E-value=0.0007  Score=81.80  Aligned_cols=99  Identities=13%  Similarity=0.112  Sum_probs=65.0

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|||+++..  +..++|...+-......++|+ ||....+.. .......|++.+++.++..+.+...+.... .
T Consensus       118 gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg-I  196 (944)
T PRK14949        118 GRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ-L  196 (944)
T ss_pred             CCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC-C
Confidence            67889999999876  344554433333333444444 555454443 234567999999999999999988774321 1


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      ....+.+..|++..+|.|..+..+
T Consensus       197 ~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        197 PFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            223467888999999988544443

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.48  E-value=3.4e-06  Score=95.58  Aligned_cols=124  Identities=25%  Similarity=0.143  Sum_probs=86.5

Q ss_pred             cccceEEEccCCccccccCcC-CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEE
Q 000869          321 LRKCYAISIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTL  399 (1247)
Q Consensus       321 ~~~~~~l~l~~~~i~~~~~~~-~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L  399 (1247)
                      |..+..++.+.|.+..+.... -++.|+.|+|++|...     .-+.+..+.+|+.|||++|.+..+|..-..--+|+.|
T Consensus       163 Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~-----~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L  237 (1096)
T KOG1859|consen  163 WNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKFT-----KVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLL  237 (1096)
T ss_pred             hhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhh-----hhHHHHhcccccccccccchhccccccchhhhhheee
Confidence            445667777777766666555 4678888888888766     2236678888888888888888776522222238888


Q ss_pred             EccCcCCCCcccccCCCCCcEEEccCCCCCcCc--hhhcCCCCCcEEeccCC
Q 000869          400 CLDQCILGDVAIIGKLKNLEILSFSGSGIVKLP--EELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       400 ~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp--~~i~~L~~L~~L~L~~~  449 (1247)
                      ++++|.++.+..+.+|++|+.||+++|-|....  .-++.|..|+.|.|.||
T Consensus       238 ~lrnN~l~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGN  289 (1096)
T KOG1859|consen  238 NLRNNALTTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGN  289 (1096)
T ss_pred             eecccHHHhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCC
Confidence            888888887777888888888888887665321  22566667777777776

>PRK08727 hypothetical protein; Validated

Probab=97.48  E-value=0.00083  Score=70.82  Aligned_cols=138  Identities=17%  Similarity=0.108  Sum_probs=83.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++.....  ...++|+++.+..      ..+                 ....+++  ...-+||+||+
T Consensus        50 ~G~GKThL~~a~~~~~~~~--~~~~~y~~~~~~~------~~~-----------------~~~~~~l--~~~dlLiIDDi  102 (233)
T PRK08727         50 AGTGKTHLALALCAAAEQA--GRSSAYLPLQAAA------GRL-----------------RDALEAL--EGRSLVALDGL  102 (233)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCcEEEEeHHHhh------hhH-----------------HHHHHHH--hcCCEEEEeCc
Confidence            6999999999999987643  3467788743311      111                 1122233  24458999999


Q ss_pred             CCcc---cchhhccCCCC--CCCCcEEEEecCChhhh---------hhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRV---DLETVGIPFGD--DHRGCKLLLTARDRTVL---------FSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~---~~~~l~~~~~~--~~~~~~vliTtR~~~~~---------~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +...   .+......+..  ...|..||+|++...-.         .++.....+++++++.++-.+++.+.+.+.. ..
T Consensus       103 ~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a~~~~-l~  181 (233)
T PRK08727        103 ESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERAQRRG-LA  181 (233)
T ss_pred             ccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHHHHcC-CC
Confidence            7542   12111111111  12355699999754321         1333456899999999999999998773211 12


Q ss_pred             hhHHHHHHHHHHcCCCchHH
Q 000869          148 ELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai  167 (1247)
                      -.++...-|++.++|-.-.+
T Consensus       182 l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        182 LDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             CCHHHHHHHHHhCCCCHHHH
Confidence            23466778888887665444

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.47  E-value=0.0009  Score=78.33  Aligned_cols=97  Identities=9%  Similarity=0.099  Sum_probs=63.2

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCCh-hhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  ...+++...+.....+.++|++|.+. .+.. ....+..+++.+++.++..+.+...+..... 
T Consensus       117 gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI-  195 (702)
T PRK14960        117 GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQI-  195 (702)
T ss_pred             CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC-
Confidence            56778999999875  34445544443333455666665543 3322 2355679999999999999999888842221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHH
Q 000869          147 RELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      .-..+....|++..+|-+..+.
T Consensus       196 ~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        196 AADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHH
Confidence            2234677889999999774443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.47  E-value=0.0091  Score=71.44  Aligned_cols=138  Identities=20%  Similarity=0.147  Sum_probs=84.9

Q ss_pred             CCCccHHHHHHHHHHHhhhc---cCCC--eEEEEEcCCccCHHHHHHHHHHHhCCCcccc--chHHHHHHHHHHHhc--C
Q 000869            1 MGGIGKTTLVKEVARKARKD---KLFD--RVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE--TESSRASRLHEQLKR--E   71 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~---~~f~--~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~--~   71 (1247)
                      .+|.|||++++.|+++....   ...+  .+++|++....+...++..|+.++....+..  ...+....++..+..  +
T Consensus       789 ~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r  868 (1164)
T PTZ00112        789 MPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNR  868 (1164)
T ss_pred             CCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccc
Confidence            47999999999999887532   1222  3678888888889999999999884433221  233455666665532  2


Q ss_pred             CeEEEEEeCCCCcc--c---chhhccCCCCCCCCcEEEE--ecCChhhhh--------hcCCcceEEcCCCCHHHHHHHH
Q 000869           72 EKILIILDNIWKRV--D---LETVGIPFGDDHRGCKLLL--TARDRTVLF--------SMGSEKNFLVDILKEEEAWRLF  136 (1247)
Q Consensus        72 ~~~LlvlDd~~~~~--~---~~~l~~~~~~~~~~~~vli--TtR~~~~~~--------~~~~~~~~~l~~l~~~ea~~l~  136 (1247)
                      ...+||||+++...  .   +-.+.. +. ...+++|+|  +|.......        +++ ...+..++++.++-.+++
T Consensus       869 ~v~IIILDEID~L~kK~QDVLYnLFR-~~-~~s~SKLiLIGISNdlDLperLdPRLRSRLg-~eeIvF~PYTaEQL~dIL  945 (1164)
T PTZ00112        869 NVSILIIDEIDYLITKTQKVLFTLFD-WP-TKINSKLVLIAISNTMDLPERLIPRCRSRLA-FGRLVFSPYKGDEIEKII  945 (1164)
T ss_pred             cceEEEeehHhhhCccHHHHHHHHHH-Hh-hccCCeEEEEEecCchhcchhhhhhhhhccc-cccccCCCCCHHHHHHHH
Confidence            34689999998652  1   222211 11 123455544  332221111        111 223566899999999999


Q ss_pred             HHHhC
Q 000869          137 KLMAG  141 (1247)
Q Consensus       137 ~~~~~  141 (1247)
                      ..++.
T Consensus       946 k~RAe  950 (1164)
T PTZ00112        946 KERLE  950 (1164)
T ss_pred             HHHHH
Confidence            99984

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=97.45  E-value=0.0011  Score=78.40  Aligned_cols=98  Identities=11%  Similarity=0.107  Sum_probs=64.4

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCChhhhh--hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDRTVLF--SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~~~~~--~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++.-++|||+++...  .++.+...+..-....++|+||.+..-..  ....+..|.++.++.++..+.+.+.++.... 
T Consensus       118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI-  196 (830)
T PRK07003        118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI-  196 (830)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC-
Confidence            456688999999763  35555443333334666666666554322  2245678999999999999999998853222 


Q ss_pred             hhhHHHHHHHHHHcCCCc-hHHHH
Q 000869          147 RELKSTATEVAKACKGLP-IALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~P-lai~~  169 (1247)
                      .-..+....|++.++|.. -|+.+
T Consensus       197 ~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        197 AFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            223567788999998865 44444

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.43  E-value=0.002  Score=74.95  Aligned_cols=96  Identities=9%  Similarity=0.108  Sum_probs=64.2

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEE-EecCChhhhhhc-CCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLL-LTARDRTVLFSM-GSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vl-iTtR~~~~~~~~-~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  ..++++...+......+++| +||+...+...+ .....+++.+++.++..+.+.+.+......
T Consensus       127 ~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~  206 (507)
T PRK06645        127 GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIISRCQRYDLRRLSFEEIFKLLEYITKQENLK  206 (507)
T ss_pred             CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCC
Confidence            56778999999875  34566654444444455544 466655554422 345689999999999999999988432221


Q ss_pred             hhhHHHHHHHHHHcCCCchHH
Q 000869          147 RELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai  167 (1247)
                       -..++...|++.++|.+.-+
T Consensus       207 -ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        207 -TDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             -CCHHHHHHHHHHcCCCHHHH
Confidence             23456788999999977433

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

Probab=97.41  E-value=0.0003  Score=73.97  Aligned_cols=82  Identities=16%  Similarity=0.245  Sum_probs=54.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc--cCHHHHHHHH-----HHHhCCCcccc-chH-HHHHHHHHHHhcCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT--IDIKKIQQAI-----AEKLGLVLQEE-TES-SRASRLHEQLKREE   72 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~--~~~~~~~~~i-----~~~l~~~~~~~-~~~-~~~~~~~~~l~~~~   72 (1247)
                      +|+|||||++++++..... +|+.++|+.+...  .+..++++.+     +.+++.+.... .-. ............|+
T Consensus        25 ~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~a~~~~~~G~  103 (249)
T cd01128          25 PKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEKAKRLVEHGK  103 (249)
T ss_pred             CCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHHHHHHHHCCC
Confidence            7999999999999988754 7999999986554  7899999999     44444321110 001 11122222223489


Q ss_pred             eEEEEEeCCCCc
Q 000869           73 KILIILDNIWKR   84 (1247)
Q Consensus        73 ~~LlvlDd~~~~   84 (1247)
                      ++++++|++..-
T Consensus       104 ~vll~iDei~r~  115 (249)
T cd01128         104 DVVILLDSITRL  115 (249)
T ss_pred             CEEEEEECHHHh
Confidence            999999998653

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.

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=97.41  E-value=0.00034  Score=76.47  Aligned_cols=83  Identities=14%  Similarity=0.221  Sum_probs=54.8

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc--CHHHHHHHHHHHhCCCccccchH------HHHHHHHHHH-hcC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI--DIKKIQQAIAEKLGLVLQEETES------SRASRLHEQL-KRE   71 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~------~~~~~~~~~l-~~~   71 (1247)
                      .+|+||||||+++++..... +|+.++|+.+.+..  .+.++++.+...+-....+....      ..+.+..+++ ..|
T Consensus       177 ppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~Ae~~~e~G  255 (416)
T PRK09376        177 PPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEKAKRLVEHG  255 (416)
T ss_pred             CCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHHHHHHHHcC
Confidence            37999999999999998864 79999999887666  78888888863221111111111      1111112222 348


Q ss_pred             CeEEEEEeCCCCc
Q 000869           72 EKILIILDNIWKR   84 (1247)
Q Consensus        72 ~~~LlvlDd~~~~   84 (1247)
                      ++++|++|++..-
T Consensus       256 ~dVlL~iDsItR~  268 (416)
T PRK09376        256 KDVVILLDSITRL  268 (416)
T ss_pred             CCEEEEEEChHHH
Confidence            9999999998643

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.40  E-value=0.0011  Score=77.40  Aligned_cols=99  Identities=9%  Similarity=0.091  Sum_probs=64.5

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++.-++|||+++..  ..++.+...+..-...++ |++||....+.. ....+..|.++.++.++..+.+.+.+......
T Consensus       123 gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi~  202 (700)
T PRK12323        123 GRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGIA  202 (700)
T ss_pred             CCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCCC
Confidence            67779999999876  344555444333233444 556666555543 22446789999999999999999887432211


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                       ...+....|++.++|.|.....+
T Consensus       203 -~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        203 -HEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHHH
Confidence             22456688999999998544433

>PRK04195 replication factor C large subunit; Provisional

Probab=97.37  E-value=0.013  Score=69.55  Aligned_cols=211  Identities=13%  Similarity=0.063  Sum_probs=112.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+||||+|++++++..    |+ ++-++.++..+... +..++.......              .+...++.+||+|++
T Consensus        48 pG~GKTtla~ala~el~----~~-~ielnasd~r~~~~-i~~~i~~~~~~~--------------sl~~~~~kvIiIDEa  107 (482)
T PRK04195         48 PGVGKTSLAHALANDYG----WE-VIELNASDQRTADV-IERVAGEAATSG--------------SLFGARRKLILLDEV  107 (482)
T ss_pred             CCCCHHHHHHHHHHHcC----CC-EEEEcccccccHHH-HHHHHHHhhccC--------------cccCCCCeEEEEecC
Confidence            79999999999999863    33 44455555443332 222222211000              011136789999999


Q ss_pred             CCccc------chhhccCCCCCCCCcEEEEecCChh-hhh--hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHH
Q 000869           82 WKRVD------LETVGIPFGDDHRGCKLLLTARDRT-VLF--SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKST  152 (1247)
Q Consensus        82 ~~~~~------~~~l~~~~~~~~~~~~vliTtR~~~-~~~--~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~  152 (1247)
                      +....      ++++...+.  ..+..||+|+.+.. ...  .......+++++++..+....+...+...... -..++
T Consensus       108 D~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrsr~~~I~f~~~~~~~i~~~L~~i~~~egi~-i~~ea  184 (482)
T PRK04195        108 DGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRNACLMIEFKRLSTRSIVPVLKRICRKEGIE-CDDEA  184 (482)
T ss_pred             cccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhccceEEEecCCCHHHHHHHHHHHHHHcCCC-CCHHH
Confidence            87521      344433322  12344666664332 111  11345688999999999999998887322111 23467


Q ss_pred             HHHHHHHcCCCchHHHHHHHHHhcC----ChhHHHHHHHHhcCCCCCCCCCCChhHHHHHHHHHcCCCchhHHHHHHhcc
Q 000869          153 ATEVAKACKGLPIALTTIARALRNK----SMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLCS  228 (1247)
Q Consensus       153 ~~~i~~~~~g~Plai~~~a~~l~~~----~~~~w~~~l~~l~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~~~~~~~~~a  228 (1247)
                      ...|++.++|-.-.+......+...    +.+....+..          .+....++.++..-+..=....+...+.   
T Consensus       185 L~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~----------~d~~~~if~~l~~i~~~k~~~~a~~~~~---  251 (482)
T PRK04195        185 LKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGR----------RDREESIFDALDAVFKARNADQALEASY---  251 (482)
T ss_pred             HHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhc----------CCCCCCHHHHHHHHHCCCCHHHHHHHHH---
Confidence            8999999998665444333333322    2222222211          1223456777776665322221333222   


Q ss_pred             CCCCCcChhHHHHHHHhcCcccc
Q 000869          229 LMGNEIATSDLFKYCMCLGIFKG  251 (1247)
Q Consensus       229 ~fp~~~~~~~l~~~w~~~g~~~~  251 (1247)
                        ..+++.+ .+-.|+.+.+...
T Consensus       252 --~~~~~~~-~i~~~l~en~~~~  271 (482)
T PRK04195        252 --DVDEDPD-DLIEWIDENIPKE  271 (482)
T ss_pred             --cccCCHH-HHHHHHHhccccc
Confidence              2234443 4567888888754

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.37  E-value=0.00027  Score=68.22  Aligned_cols=99  Identities=20%  Similarity=0.211  Sum_probs=51.6

Q ss_pred             ceEEEccCCccccccCcCCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCC--cccccCCCCcEEEc
Q 000869          324 CYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLP--PSIDHLLNLQTLCL  401 (1247)
Q Consensus       324 ~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp--~~l~~l~~L~~L~L  401 (1247)
                      ...+++.+|.+..++....++.|.+|.+..|++.   .+.+.+-..+++|..|.|.+|+|..+-  +.+..++.|++|.+
T Consensus        44 ~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt---~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltl  120 (233)
T KOG1644|consen   44 FDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRIT---RIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTL  120 (233)
T ss_pred             cceecccccchhhcccCCCccccceEEecCCcce---eeccchhhhccccceEEecCcchhhhhhcchhccCCccceeee
Confidence            3445555555555555555555555555555555   333444344455555555555555431  23445555555555


Q ss_pred             cCcCCCCc-----ccccCCCCCcEEEccC
Q 000869          402 DQCILGDV-----AIIGKLKNLEILSFSG  425 (1247)
Q Consensus       402 ~~~~l~~~-----~~~~~L~~L~~L~L~~  425 (1247)
                      -+|.+++-     -.+.++++|++||+..
T Consensus       121 l~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  121 LGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             cCCchhcccCceeEEEEecCcceEeehhh
Confidence            55554432     3355555555555554

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.34  E-value=0.002  Score=74.65  Aligned_cols=159  Identities=11%  Similarity=0.110  Sum_probs=98.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.|++++++.......-..+++++.      .++...+...++..      .+..+.+.+++.  ..-+||+||+
T Consensus       150 ~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~~------~~f~~~~~~~l~~~------~~~~~~~~~~~~--~~dvLiIDDi  215 (450)
T PRK14087        150 SGMGKTHLLKAAKNYIESNFSDLKVSYMSG------DEFARKAVDILQKT------HKEIEQFKNEIC--QNDVLIIDDV  215 (450)
T ss_pred             CCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHHHh------hhHHHHHHHHhc--cCCEEEEecc
Confidence            699999999999997764322345666654      34556665555321      123344555443  4458889999


Q ss_pred             CCcc---c-chhhccCCCC-CCCCcEEEEecCChh---------hhhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCC-C
Q 000869           82 WKRV---D-LETVGIPFGD-DHRGCKLLLTARDRT---------VLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVE-N  146 (1247)
Q Consensus        82 ~~~~---~-~~~l~~~~~~-~~~~~~vliTtR~~~---------~~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~-~  146 (1247)
                      +...   . .+.+...+-. ...|..||+|+....         +..++..+-++++++++.++..+++.+.+..... .
T Consensus       216 q~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~~~~~~gl~~  295 (450)
T PRK14087        216 QFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKKEIKNQNIKQ  295 (450)
T ss_pred             ccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHHHHHhcCCCC
Confidence            7542   1 1222111111 123446888875432         1224455678889999999999999999842211 1


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      .-.+++..-|++.++|.|-.+..+...+
T Consensus       296 ~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        296 EVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             CCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            2335788999999999998777766544

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.33  E-value=0.0028  Score=74.25  Aligned_cols=97  Identities=12%  Similarity=0.100  Sum_probs=63.2

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEec-CChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTA-RDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTt-R~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  ..++++...+........+|++| +...+.. .......+++.+++.++..+.+.+.+..... 
T Consensus       115 ~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc~~~~f~~ls~~el~~~L~~i~~~egi-  193 (504)
T PRK14963        115 GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRTQHFRFRRLTEEEIAGKLRRLLEAEGR-  193 (504)
T ss_pred             CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcceEEEEecCCCHHHHHHHHHHHHHHcCC-
Confidence            56779999999865  33555554444433444555544 4333322 2244678999999999999999998732111 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHH
Q 000869          147 RELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      .-.++.+..|++.++|.+--+.
T Consensus       194 ~i~~~Al~~ia~~s~GdlR~al  215 (504)
T PRK14963        194 EAEPEALQLVARLADGAMRDAE  215 (504)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHH
Confidence            1235678899999999885443

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.29  E-value=0.0033  Score=70.03  Aligned_cols=145  Identities=19%  Similarity=0.245  Sum_probs=89.1

Q ss_pred             CCccHHHHHHHHHHHhhh----ccCCCeEEEEEc-CCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARK----DKLFDRVVFSEV-SQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~----~~~f~~~~w~~~-~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      .|+||||+|+++++..-.    +.++|...|... +...+..+ ++++...+....               . .+++-++
T Consensus        35 ~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~~~~~~~p---------------~-~~~~kv~   97 (313)
T PRK05564         35 DGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNIIEEVNKKP---------------Y-EGDKKVI   97 (313)
T ss_pred             CCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHHHHHhcCc---------------c-cCCceEE
Confidence            699999999999997643    234554455432 22233322 222222221110               0 1466677


Q ss_pred             EEeCCCCc--ccchhhccCCCCCCCCcEEEEecCChhhhh--hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHH
Q 000869           77 ILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRTVLF--SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKST  152 (1247)
Q Consensus        77 vlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~~~~--~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~  152 (1247)
                      |+|+++..  +.++++...+..-..++.+|++|.+.....  -...+..+.+.++++++....+.+....     ...+.
T Consensus        98 iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~  172 (313)
T PRK05564         98 IIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKYND-----IKEEE  172 (313)
T ss_pred             EEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHhcC-----CCHHH
Confidence            77777654  446666666665566888888886664332  1244678999999999998888776531     11344


Q ss_pred             HHHHHHHcCCCchHHH
Q 000869          153 ATEVAKACKGLPIALT  168 (1247)
Q Consensus       153 ~~~i~~~~~g~Plai~  168 (1247)
                      +..++..++|.|..+.
T Consensus       173 ~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        173 KKSAIAFSDGIPGKVE  188 (313)
T ss_pred             HHHHHHHcCCCHHHHH
Confidence            6788999999886544

>PRK08084 DNA replication initiation factor; Provisional

Probab=97.28  E-value=0.0014  Score=69.16  Aligned_cols=145  Identities=15%  Similarity=0.097  Sum_probs=87.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||+||.++++.....  -..+.|+++......                       ..++.+.+.  ..-+||+||+
T Consensus        54 ~G~GKThLl~a~~~~~~~~--~~~v~y~~~~~~~~~-----------------------~~~~~~~~~--~~dlliiDdi  106 (235)
T PRK08084         54 EGAGRSHLLHAACAELSQR--GRAVGYVPLDKRAWF-----------------------VPEVLEGME--QLSLVCIDNI  106 (235)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCeEEEEEHHHHhhh-----------------------hHHHHHHhh--hCCEEEEeCh
Confidence            6999999999999987643  456778877431110                       011222221  1247889999


Q ss_pred             CCc---ccchh-hccCCCC-CCCC-cEEEEecCChhhh---------hhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           82 WKR---VDLET-VGIPFGD-DHRG-CKLLLTARDRTVL---------FSMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        82 ~~~---~~~~~-l~~~~~~-~~~~-~~vliTtR~~~~~---------~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +..   .+|+. +...+.. ...| .++|+||+.+.-.         .++....+++++++++++-.+++.+++.+.. .
T Consensus       107 ~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l~~~a~~~~-~  185 (235)
T PRK08084        107 ECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQALQLRARLRG-F  185 (235)
T ss_pred             hhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHHHHHHHHcC-C
Confidence            764   22321 1111111 1123 3699999765332         2445567999999999999999988773221 2


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      .-.+++..-|++.+.|..-++..+-..+
T Consensus       186 ~l~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        186 ELPEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             CCCHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            2335677888888887765555544333

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.26  E-value=3.2e-05  Score=69.21  Aligned_cols=107  Identities=14%  Similarity=0.255  Sum_probs=67.6

Q ss_pred             eEEEccCCccccccCcC----CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEE
Q 000869          325 YAISIRDSSIHELLEGL----ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLC  400 (1247)
Q Consensus       325 ~~l~l~~~~i~~~~~~~----~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~  400 (1247)
                      ..+++..+.+..+++..    ...+|+..++++|.+.   .+|+.+-..++.+..|++++|.|..+|..+..++.||.|+
T Consensus        30 h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk---~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lN  106 (177)
T KOG4579|consen   30 HFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFK---KFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLN  106 (177)
T ss_pred             hhcccccchhhHHHHHHHHHhCCceEEEEecccchhh---hCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcc
Confidence            34455555554444322    4556666777777665   4466666666677777777777777777777777777777


Q ss_pred             ccCcCCCC-cccccCCCCCcEEEccCCCCCcCchh
Q 000869          401 LDQCILGD-VAIIGKLKNLEILSFSGSGIVKLPEE  434 (1247)
Q Consensus       401 L~~~~l~~-~~~~~~L~~L~~L~L~~~~i~~lp~~  434 (1247)
                      ++.|.+.. +..+..|.+|-+||..++.+..+|..
T Consensus       107 l~~N~l~~~p~vi~~L~~l~~Lds~~na~~eid~d  141 (177)
T KOG4579|consen  107 LRFNPLNAEPRVIAPLIKLDMLDSPENARAEIDVD  141 (177)
T ss_pred             cccCccccchHHHHHHHhHHHhcCCCCccccCcHH
Confidence            77776543 35555566677777666666666644

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.26  E-value=7e-05  Score=76.16  Aligned_cols=85  Identities=24%  Similarity=0.323  Sum_probs=40.7

Q ss_pred             CCCCCcEEEccCCCCCc---CchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeecCccccccCCCCcccccc
Q 000869          414 KLKNLEILSFSGSGIVK---LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINS  490 (1247)
Q Consensus       414 ~L~~L~~L~L~~~~i~~---lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~  490 (1247)
                      ...+++.|||.+|.|..   +-.-+.+|++|++|+++.| .+.......-.-+.+|++|.+.|..+.|...         
T Consensus        69 ~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N-~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~---------  138 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCN-SLSSDIKSLPLPLKNLRVLVLNGTGLSWTQS---------  138 (418)
T ss_pred             HhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCC-cCCCccccCcccccceEEEEEcCCCCChhhh---------
Confidence            34555555555555542   2222345666666666655 3322111100234566666666665554322         


Q ss_pred             cccccCCCCCCcEEEEeec
Q 000869          491 RLDELMHLPRLTTLEVHVK  509 (1247)
Q Consensus       491 ~~~~l~~l~~L~~L~l~~~  509 (1247)
                       -..+..++.++.|+++.|
T Consensus       139 -~s~l~~lP~vtelHmS~N  156 (418)
T KOG2982|consen  139 -TSSLDDLPKVTELHMSDN  156 (418)
T ss_pred             -hhhhhcchhhhhhhhccc
Confidence             123445555555555544

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

Probab=97.23  E-value=0.0019  Score=67.24  Aligned_cols=156  Identities=19%  Similarity=0.200  Sum_probs=89.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||-|.+++++.......=..|+|+++.      ++.+.++..+..        .....+...+.  .-=+|++||+
T Consensus        43 ~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~~~------~f~~~~~~~~~~--------~~~~~~~~~~~--~~DlL~iDDi  106 (219)
T PF00308_consen   43 SGLGKTHLLQAIANEAQKQHPGKRVVYLSAE------EFIREFADALRD--------GEIEEFKDRLR--SADLLIIDDI  106 (219)
T ss_dssp             TTSSHHHHHHHHHHHHHHHCTTS-EEEEEHH------HHHHHHHHHHHT--------TSHHHHHHHHC--TSSEEEEETG
T ss_pred             CCCCHHHHHHHHHHHHHhccccccceeecHH------HHHHHHHHHHHc--------ccchhhhhhhh--cCCEEEEecc
Confidence            5999999999999988643222357888643      344444433321        22344555553  5668889999


Q ss_pred             CCccc---ch-hhccCCCC-CCCCcEEEEecCChhh---------hhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRVD---LE-TVGIPFGD-DHRGCKLLLTARDRTV---------LFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~~---~~-~l~~~~~~-~~~~~~vliTtR~~~~---------~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +....   |. .+...+-. ...|.+||+|++...-         ..++..+..++++++++++..+++.+.+..... .
T Consensus       107 ~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~-~  185 (219)
T PF00308_consen  107 QFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGI-E  185 (219)
T ss_dssp             GGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT---
T ss_pred             hhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCC-C
Confidence            77522   11 11110000 1246789999954432         123455679999999999999999999942111 1


Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          148 ELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      -.++++.-|++.+.+..-.+..+-..|
T Consensus       186 l~~~v~~~l~~~~~~~~r~L~~~l~~l  212 (219)
T PF00308_consen  186 LPEEVIEYLARRFRRDVRELEGALNRL  212 (219)
T ss_dssp             S-HHHHHHHHHHTTSSHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            234677778888777665555544433

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.

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

Probab=97.18  E-value=0.016  Score=64.84  Aligned_cols=166  Identities=22%  Similarity=0.295  Sum_probs=105.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCC-CccccchHHHHHHHHHHHhc-CCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL-VLQEETESSRASRLHEQLKR-EEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~-~~~~~~~~~~~~~~~~~l~~-~~~~LlvlD   79 (1247)
                      +|.|||+.++.++++.+....=..+++|++....+..+++..|+..++. +.......+....+++.+.. ++.+++|+|
T Consensus        51 ~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLD  130 (366)
T COG1474          51 TGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTVIVILD  130 (366)
T ss_pred             CCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcCCCCCCCCchHHHHHHHHHHHHhcCCeEEEEEc
Confidence            6999999999999998754211228999999999999999999999963 33345566667777777765 688999999


Q ss_pred             CCCCccc-----chhhccCCCCCCCCcE--EEEecCChhhhh--------hcCCcceEEcCCCCHHHHHHHHHHHh--C-
Q 000869           80 NIWKRVD-----LETVGIPFGDDHRGCK--LLLTARDRTVLF--------SMGSEKNFLVDILKEEEAWRLFKLMA--G-  141 (1247)
Q Consensus        80 d~~~~~~-----~~~l~~~~~~~~~~~~--vliTtR~~~~~~--------~~~~~~~~~l~~l~~~ea~~l~~~~~--~-  141 (1247)
                      +++....     +..+.......  .++  ||..+-+.....        .++. ..+..++.+.+|-...+...+  + 
T Consensus       131 Eid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~~~~~ld~rv~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~  207 (366)
T COG1474         131 EVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDKFLDYLDPRVKSSLGP-SEIVFPPYTAEELYDILRERVEEGF  207 (366)
T ss_pred             chhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHHHHHHhhhhhhhccCc-ceeeeCCCCHHHHHHHHHHHHHhhc
Confidence            9986522     22332211111  333  333444333222        1122 236788999999999999988  2 


Q ss_pred             -CCCCChhhHHHHHHHHHHcCC-CchHHHHH
Q 000869          142 -DDVENRELKSTATEVAKACKG-LPIALTTI  170 (1247)
Q Consensus       142 -~~~~~~~~~~~~~~i~~~~~g-~Plai~~~  170 (1247)
                       +.....+.-+.+..++..-+| .-.||.++
T Consensus       208 ~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         208 SAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             cCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence             222233333445555555554 44555544

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.17  E-value=0.00017  Score=73.39  Aligned_cols=103  Identities=17%  Similarity=0.103  Sum_probs=70.9

Q ss_pred             EEEccCCccccccCc----CCCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCccc-ccCCCCcEEE
Q 000869          326 AISIRDSSIHELLEG----LECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLC  400 (1247)
Q Consensus       326 ~l~l~~~~i~~~~~~----~~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l-~~l~~L~~L~  400 (1247)
                      -+.+.++.|......    ..+.+++.++|.+|.++..-++ ..++.+|++|++|+++.|.+...-.++ ..+++|++|.
T Consensus        49 llvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI-~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lV  127 (418)
T KOG2982|consen   49 LLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEI-GAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLV  127 (418)
T ss_pred             hheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHH-HHHHhcCccceEeeccCCcCCCccccCcccccceEEEE
Confidence            445555555544432    2678899999999988744222 356688999999999999776332333 3567999999


Q ss_pred             ccCcCCCC--c-ccccCCCCCcEEEccCCCCC
Q 000869          401 LDQCILGD--V-AIIGKLKNLEILSFSGSGIV  429 (1247)
Q Consensus       401 L~~~~l~~--~-~~~~~L~~L~~L~L~~~~i~  429 (1247)
                      |.+..+.-  . +.+..++.++.|.++.|++.
T Consensus       128 LNgT~L~w~~~~s~l~~lP~vtelHmS~N~~r  159 (418)
T KOG2982|consen  128 LNGTGLSWTQSTSSLDDLPKVTELHMSDNSLR  159 (418)
T ss_pred             EcCCCCChhhhhhhhhcchhhhhhhhccchhh
Confidence            98887643  3 56677888888888877554

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=97.14  E-value=0.00034  Score=70.38  Aligned_cols=95  Identities=20%  Similarity=0.184  Sum_probs=51.5

Q ss_pred             ccccCCCCCcEEEccCCCCC-cCc----hhhcCCCCCcEEeccCCCCCcccChhhhc-------------CCCCCCEEEe
Q 000869          410 AIIGKLKNLEILSFSGSGIV-KLP----EELGQLTKLRHLDLSNCFKLKVIAPNVIS-------------SLIRLEELYM  471 (1247)
Q Consensus       410 ~~~~~L~~L~~L~L~~~~i~-~lp----~~i~~L~~L~~L~L~~~~~l~~~~~~~~~-------------~L~~L~~L~l  471 (1247)
                      +.+-++++|+..+||.|.+. +.|    +-|++-+.|.+|.+++| .+..+..+.|+             +-+.|++...
T Consensus        86 ~aLlkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~Nn-GlGp~aG~rigkal~~la~nKKaa~kp~Le~vic  164 (388)
T COG5238          86 KALLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNN-GLGPIAGGRIGKALFHLAYNKKAADKPKLEVVIC  164 (388)
T ss_pred             HHHhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecC-CCCccchhHHHHHHHHHHHHhhhccCCCceEEEe
Confidence            44567777777777777554 333    33566777888888777 55544433333             3345666665


Q ss_pred             ecCccccccCCCCcccccccccccCCCCCCcEEEEeecCCC
Q 000869          472 SNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDN  512 (1247)
Q Consensus       472 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~  512 (1247)
                      ..|.+...       ........+....+|+.+.+..|++.
T Consensus       165 grNRleng-------s~~~~a~~l~sh~~lk~vki~qNgIr  198 (388)
T COG5238         165 GRNRLENG-------SKELSAALLESHENLKEVKIQQNGIR  198 (388)
T ss_pred             ccchhccC-------cHHHHHHHHHhhcCceeEEeeecCcC
Confidence            55544300       00111123334456666666666554

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.13  E-value=0.0024  Score=67.56  Aligned_cols=142  Identities=13%  Similarity=0.140  Sum_probs=84.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||+||+++++.....  =..+++++.......      +                     . .. ...-+||+||+
T Consensus        51 ~G~GKT~La~ai~~~~~~~--~~~~~~i~~~~~~~~------~---------------------~-~~-~~~~~liiDdi   99 (227)
T PRK08903         51 AGSGRSHLLQALVADASYG--GRNARYLDAASPLLA------F---------------------D-FD-PEAELYAVDDV   99 (227)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCcEEEEehHHhHHH------H---------------------h-hc-ccCCEEEEeCh
Confidence            6999999999999986432  235667765442110      0                     0 11 23447888999


Q ss_pred             CCcc--cchhhccCCCC-CCCCc-EEEEecCChhhhh--------hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhh
Q 000869           82 WKRV--DLETVGIPFGD-DHRGC-KLLLTARDRTVLF--------SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENREL  149 (1247)
Q Consensus        82 ~~~~--~~~~l~~~~~~-~~~~~-~vliTtR~~~~~~--------~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~  149 (1247)
                      +...  ..+.+...+.. ...+. .||+|++......        ++.....++++++++++-..++.+.+.+.. ..-.
T Consensus       100 ~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~~~~-v~l~  178 (227)
T PRK08903        100 ERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAAERG-LQLA  178 (227)
T ss_pred             hhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHHHcC-CCCC
Confidence            7542  22222222211 11233 4777776543221        223346889999999988888877653211 1223


Q ss_pred             HHHHHHHHHHcCCCchHHHHHHHHHh
Q 000869          150 KSTATEVAKACKGLPIALTTIARALR  175 (1247)
Q Consensus       150 ~~~~~~i~~~~~g~Plai~~~a~~l~  175 (1247)
                      +++...+++...|.+..+..+...+.
T Consensus       179 ~~al~~L~~~~~gn~~~l~~~l~~l~  204 (227)
T PRK08903        179 DEVPDYLLTHFRRDMPSLMALLDALD  204 (227)
T ss_pred             HHHHHHHHHhccCCHHHHHHHHHHHH
Confidence            46788888889999988877766553

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.13  E-value=0.0054  Score=70.84  Aligned_cols=148  Identities=12%  Similarity=0.152  Sum_probs=88.4

Q ss_pred             CCccHHHHHHHHHHHhhhc-------------------cCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKD-------------------KLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRAS   62 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~-------------------~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~   62 (1247)
                      .|+||||+|+.+++...+.                   ..+..++.++..+.....++- .+.......           
T Consensus        44 ~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv~eidaas~~~vddIR-~Iie~~~~~-----------  111 (491)
T PRK14964         44 SGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDVIEIDAASNTSVDDIK-VILENSCYL-----------  111 (491)
T ss_pred             CCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCEEEEecccCCCHHHHH-HHHHHHHhc-----------
Confidence            6999999999999865321                   123345666655444333221 222111000           


Q ss_pred             HHHHHHhcCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHH
Q 000869           63 RLHEQLKREEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        63 ~~~~~l~~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                          -. .++.-++|+|+++..  +..+++...+..-....++|+ ||....+... ......+++.+++.++..+.+.+
T Consensus       112 ----P~-~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~  186 (491)
T PRK14964        112 ----PI-SSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVD  186 (491)
T ss_pred             ----cc-cCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHH
Confidence                00 156778999999865  234555444444334455554 5554555442 24567899999999999999998


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCCchHH
Q 000869          139 MAGDDVENRELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~Plai  167 (1247)
                      .+...... -..+....|++.++|.+..+
T Consensus       187 ia~~Egi~-i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        187 IAKKENIE-HDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             HHHHcCCC-CCHHHHHHHHHHcCCCHHHH
Confidence            88432221 23466788999999877543

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=97.12  E-value=0.0045  Score=70.40  Aligned_cols=167  Identities=15%  Similarity=0.125  Sum_probs=87.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCH--HHHHH--HHHHHhCCC-ccccchHHHHHHHHHHHhc-----C
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDI--KKIQQ--AIAEKLGLV-LQEETESSRASRLHEQLKR-----E   71 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~--~~~~~--~i~~~l~~~-~~~~~~~~~~~~~~~~l~~-----~   71 (1247)
                      +|+|||++|+++++.......-..+++++++.....  ..+..  .....++.. .......+.+..+.+....     +
T Consensus        45 ~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  124 (337)
T PRK12402         45 PGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSA  124 (337)
T ss_pred             CCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCC
Confidence            699999999999988763321123556665432110  00000  000001100 0000112222333222211     3


Q ss_pred             CeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCChh-hhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           72 EKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDRT-VLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        72 ~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~~-~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      .+-+||+||++...  ..+.+...+......+++|+||.... +... ......+++.+++.++..+++.+.+..... .
T Consensus       125 ~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~-~  203 (337)
T PRK12402        125 DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGV-D  203 (337)
T ss_pred             CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCC-C
Confidence            45589999997652  22333333322334566777764432 2221 133567889999999999999988732221 1


Q ss_pred             hhHHHHHHHHHHcCCCchHHHH
Q 000869          148 ELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      -..+.+..+++.++|.+-.+..
T Consensus       204 ~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        204 YDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             CCHHHHHHHHHHcCCCHHHHHH
Confidence            2356788999999887655443

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.11  E-value=0.0058  Score=71.75  Aligned_cols=99  Identities=10%  Similarity=0.111  Sum_probs=63.2

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  ...+.+...+.......+ |++||....+... ...+..+++.+++.++..+.+.+.+..... 
T Consensus       118 g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~egi-  196 (546)
T PRK14957        118 GRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKENI-  196 (546)
T ss_pred             CCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcCC-
Confidence            67789999999865  334555444444333444 4456654444432 345679999999999998888887632221 


Q ss_pred             hhhHHHHHHHHHHcCCCc-hHHHHH
Q 000869          147 RELKSTATEVAKACKGLP-IALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~P-lai~~~  170 (1247)
                      .-..+....|++.++|-+ .|+..+
T Consensus       197 ~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        197 NSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            223466788999999866 344443

>PRK05642 DNA replication initiation factor; Validated

Probab=97.10  E-value=0.0034  Score=66.21  Aligned_cols=145  Identities=18%  Similarity=0.222  Sum_probs=86.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.||+++++....+  -..++|++..+-.      ..                 ...+.+.+. +-. +||+||+
T Consensus        54 ~G~GKTHLl~a~~~~~~~~--~~~v~y~~~~~~~------~~-----------------~~~~~~~~~-~~d-~LiiDDi  106 (234)
T PRK05642         54 DGVGRSHLLQAACLRFEQR--GEPAVYLPLAELL------DR-----------------GPELLDNLE-QYE-LVCLDDL  106 (234)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCcEEEeeHHHHH------hh-----------------hHHHHHhhh-hCC-EEEEech
Confidence            6999999999999877533  3568888764311      10                 122334443 222 6788999


Q ss_pred             CCc---ccchh-hccCCCC-CCCCcEEEEecCChhhhh---------hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKR---VDLET-VGIPFGD-DHRGCKLLLTARDRTVLF---------SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~---~~~~~-l~~~~~~-~~~~~~vliTtR~~~~~~---------~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +..   ..|+. +...+-. ...|.++|+|++...-..         ++.....++++++++++-.+++..++.+.. ..
T Consensus       107 ~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka~~~~-~~  185 (234)
T PRK05642        107 DVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRASRRG-LH  185 (234)
T ss_pred             hhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcC-CC
Confidence            743   23322 2111111 124667999887543221         223446899999999999999997663211 11


Q ss_pred             hhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          148 ELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      -.+++..-|++.+.|-.-.+..+-..|
T Consensus       186 l~~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        186 LTDEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             CCHHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            224677888888888765555544443

>PLN03025 replication factor C subunit; Provisional

Probab=97.09  E-value=0.0031  Score=70.41  Aligned_cols=147  Identities=12%  Similarity=0.061  Sum_probs=82.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCC-eEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFD-RVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~-~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+||||+|..+++..... .|. .++-++.++..... ..+.+.+.+.....             ....++.-++|+|+
T Consensus        43 ~G~GKTtla~~la~~l~~~-~~~~~~~eln~sd~~~~~-~vr~~i~~~~~~~~-------------~~~~~~~kviiiDE  107 (319)
T PLN03025         43 PGTGKTTSILALAHELLGP-NYKEAVLELNASDDRGID-VVRNKIKMFAQKKV-------------TLPPGRHKIVILDE  107 (319)
T ss_pred             CCCCHHHHHHHHHHHHhcc-cCccceeeecccccccHH-HHHHHHHHHHhccc-------------cCCCCCeEEEEEec
Confidence            7999999999999987532 232 23333333332222 12222211100000             00114567899999


Q ss_pred             CCCcc--cchhhccCCCCCCCCcEEEEecCCh-hhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 000869           81 IWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEV  156 (1247)
Q Consensus        81 ~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i  156 (1247)
                      ++...  ..+++...+......+++++++... .+.. -......++++++++++..+.+...+...... -..+....|
T Consensus       108 ~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~i~f~~l~~~~l~~~L~~i~~~egi~-i~~~~l~~i  186 (319)
T PLN03025        108 ADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAIVRFSRLSDQEILGRLMKVVEAEKVP-YVPEGLEAI  186 (319)
T ss_pred             hhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhcccCCCCCHHHHHHHHHHHHHHcCCC-CCHHHHHHH
Confidence            98762  2334433333333456666666432 2222 11235689999999999999999888322211 124677889


Q ss_pred             HHHcCCCc
Q 000869          157 AKACKGLP  164 (1247)
Q Consensus       157 ~~~~~g~P  164 (1247)
                      ++.++|-.
T Consensus       187 ~~~~~gDl  194 (319)
T PLN03025        187 IFTADGDM  194 (319)
T ss_pred             HHHcCCCH
Confidence            99998866

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.07  E-value=0.0034  Score=74.38  Aligned_cols=98  Identities=8%  Similarity=0.077  Sum_probs=60.8

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecC-Chhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTAR-DRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR-~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  ..+++...+......+++|++|. ...+.. ..+....|.+..++.++..+.+.+.+..... 
T Consensus       118 gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi-  196 (709)
T PRK08691        118 GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKI-  196 (709)
T ss_pred             CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCC-
Confidence            567789999998753  23334333332233455555553 333332 2244567888899999999999988842221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      .-..+....|++.++|.+.-+..
T Consensus       197 ~id~eAL~~Ia~~A~GslRdAln  219 (709)
T PRK08691        197 AYEPPALQLLGRAAAGSMRDALS  219 (709)
T ss_pred             CcCHHHHHHHHHHhCCCHHHHHH
Confidence            12346788999999988744433

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.07  E-value=0.0037  Score=74.51  Aligned_cols=99  Identities=11%  Similarity=0.087  Sum_probs=63.0

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  ...+++...+..-....+ |++||....+.. .......|.+.+++.++..+.+...+..... 
T Consensus       118 g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i-  196 (647)
T PRK07994        118 GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRQQLEHILQAEQI-  196 (647)
T ss_pred             CCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC-
Confidence            67789999999876  334444333333223343 555665555543 2244679999999999999999887732111 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      ....+....|++.++|.+..+..+
T Consensus       197 ~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        197 PFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            123456788999999987544333

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.06  E-value=0.0046  Score=70.47  Aligned_cols=95  Identities=8%  Similarity=-0.013  Sum_probs=62.3

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEE-EEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKL-LLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~v-liTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++..++|+|+++..  +.++++...+........+ +.||....+.. .......|.+.+++.++..+.+...+..... 
T Consensus       120 g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi-  198 (484)
T PRK14956        120 GKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETILSRCQDFIFKKVPLSVLQDYSEKLCKIENV-  198 (484)
T ss_pred             CCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHHhhhheeeecCCCHHHHHHHHHHHHHHcCC-
Confidence            56779999999876  3456654444332234443 44555444433 2245678999999999999999888732221 


Q ss_pred             hhhHHHHHHHHHHcCCCchH
Q 000869          147 RELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      .-..++...|++..+|.+.-
T Consensus       199 ~~e~eAL~~Ia~~S~Gd~Rd  218 (484)
T PRK14956        199 QYDQEGLFWIAKKGDGSVRD  218 (484)
T ss_pred             CCCHHHHHHHHHHcCChHHH
Confidence            12356788999999998843

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.04  E-value=0.0091  Score=68.37  Aligned_cols=100  Identities=9%  Similarity=0.085  Sum_probs=63.8

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCChh-hhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~-~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++..  ...+++...+......+.+|++|.+.. +.. .......+++.+++.++..+.+...+..... 
T Consensus       116 ~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~-  194 (355)
T TIGR02397       116 GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGI-  194 (355)
T ss_pred             CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCC-
Confidence            45668899999765  334445444433334566666665444 222 1234568889999999999999987732211 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTIA  171 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~a  171 (1247)
                      .-.++.+..+++.++|.|..+....
T Consensus       195 ~i~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       195 KIEDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             CCCHHHHHHHHHHcCCChHHHHHHH
Confidence            1224678889999999886655543

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.

>PRK09087 hypothetical protein; Validated

Probab=97.03  E-value=0.0031  Score=65.85  Aligned_cols=99  Identities=12%  Similarity=0.016  Sum_probs=61.9

Q ss_pred             EEEEeCCCCcc-cchhhccCCCC-CCCCcEEEEecCCh---------hhhhhcCCcceEEcCCCCHHHHHHHHHHHhCCC
Q 000869           75 LIILDNIWKRV-DLETVGIPFGD-DHRGCKLLLTARDR---------TVLFSMGSEKNFLVDILKEEEAWRLFKLMAGDD  143 (1247)
Q Consensus        75 LlvlDd~~~~~-~~~~l~~~~~~-~~~~~~vliTtR~~---------~~~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~  143 (1247)
                      +|++||++... +-+.+...+-. ...|..+|+|++..         .+..++.....++++++++++-.+++.+.+.+.
T Consensus        90 ~l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~  169 (226)
T PRK09087         90 PVLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADR  169 (226)
T ss_pred             eEEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHc
Confidence            78889997541 11222111111 12366799988742         223344667899999999999999999999432


Q ss_pred             CCChhhHHHHHHHHHHcCCCchHHHHHHHHH
Q 000869          144 VENRELKSTATEVAKACKGLPIALTTIARAL  174 (1247)
Q Consensus       144 ~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l  174 (1247)
                      . ..-.+++..-|++.+.|..-++..+-..|
T Consensus       170 ~-~~l~~ev~~~La~~~~r~~~~l~~~l~~L  199 (226)
T PRK09087        170 Q-LYVDPHVVYYLVSRMERSLFAAQTIVDRL  199 (226)
T ss_pred             C-CCCCHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            1 12235677888888888776666544333

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.03  E-value=0.004  Score=73.17  Aligned_cols=149  Identities=11%  Similarity=0.155  Sum_probs=86.6

Q ss_pred             CCccHHHHHHHHHHHhhhcc-------------------CCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDK-------------------LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRAS   62 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~-------------------~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~   62 (1247)
                      .|+||||+|+.+++.....+                   .|..++.++......+.++ +.+...+...           
T Consensus        47 ~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~~eidaas~~~v~~i-R~l~~~~~~~-----------  114 (509)
T PRK14958         47 RGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDLFEVDAASRTKVEDT-RELLDNIPYA-----------  114 (509)
T ss_pred             CCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceEEEEcccccCCHHHH-HHHHHHHhhc-----------
Confidence            69999999999999885432                   2333455554433333322 2222222110           


Q ss_pred             HHHHHHhcCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHH
Q 000869           63 RLHEQLKREEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        63 ~~~~~l~~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                           -..++.-++|+|+++..  +..+++...+......+++|+ ||....+... ......+++++++.++..+.+..
T Consensus       115 -----p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~  189 (509)
T PRK14958        115 -----PTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQH  189 (509)
T ss_pred             -----cccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHH
Confidence                 11256678999999875  344445444443334455554 5544443322 23456788999999998888877


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCCchHHH
Q 000869          139 MAGDDVENRELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      .+...... -..+....|++.++|-+.-+.
T Consensus       190 il~~egi~-~~~~al~~ia~~s~GslR~al  218 (509)
T PRK14958        190 LLKEENVE-FENAALDLLARAANGSVRDAL  218 (509)
T ss_pred             HHHHcCCC-CCHHHHHHHHHHcCCcHHHHH
Confidence            77322211 124567788999998774433

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.01  E-value=0.0071  Score=68.47  Aligned_cols=92  Identities=13%  Similarity=0.047  Sum_probs=58.5

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCCh-hhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~-~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  ....+...+.....+..+|++|.+. .+... ......+.+++++.++..+.+.+..+-    
T Consensus       116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~~----  191 (394)
T PRK07940        116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDGV----  191 (394)
T ss_pred             CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcCC----
Confidence            566688889998762  2233433333333455555555443 33322 245679999999999999888755431    


Q ss_pred             hhhHHHHHHHHHHcCCCchHHH
Q 000869          147 RELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                        ..+.+..+++.++|.|....
T Consensus       192 --~~~~a~~la~~s~G~~~~A~  211 (394)
T PRK07940        192 --DPETARRAARASQGHIGRAR  211 (394)
T ss_pred             --CHHHHHHHHHHcCCCHHHHH
Confidence              13557888999999986443

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.00  E-value=0.0068  Score=72.21  Aligned_cols=98  Identities=9%  Similarity=0.068  Sum_probs=62.8

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEE-EecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLL-LTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vl-iTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++.-++|+|+++..  +.++++...+..-....++| +||....+.. .......++++.++.++..+.+.+.+......
T Consensus       123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~  202 (618)
T PRK14951        123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVP  202 (618)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCC
Confidence            45668899999976  34555544444333344454 5555444433 23456799999999999999999887422211


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                       -..+....|++.++|.+.-+..
T Consensus       203 -ie~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        203 -AEPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHH
Confidence             2245678889999987744433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.00  E-value=0.028  Score=65.41  Aligned_cols=102  Identities=14%  Similarity=0.090  Sum_probs=62.1

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..+.+...+........+|+ ||....+.. .......+++.+++.++....+.+.+..... 
T Consensus       116 ~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi-  194 (472)
T PRK14962        116 GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGI-  194 (472)
T ss_pred             CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCC-
Confidence            56779999999865  334445444433333344443 443233333 2234578999999999999999888732111 


Q ss_pred             hhhHHHHHHHHHHcCC-CchHHHHHHHH
Q 000869          147 RELKSTATEVAKACKG-LPIALTTIARA  173 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g-~Plai~~~a~~  173 (1247)
                      .-.+++...|++.++| .+.|+..+...
T Consensus       195 ~i~~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        195 EIDREALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             CCCHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            1234667888887765 45666666543

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.99  E-value=0.0049  Score=73.04  Aligned_cols=95  Identities=9%  Similarity=0.063  Sum_probs=60.0

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  ..+++...+......+.+|+ ||..+.+... ......++++.++.++..+.+.+.+..... 
T Consensus       118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi-  196 (527)
T PRK14969        118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI-  196 (527)
T ss_pred             CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC-
Confidence            567799999998763  34444444443333454554 5444433321 233568899999999999888887732211 


Q ss_pred             hhhHHHHHHHHHHcCCCchH
Q 000869          147 RELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      ....+....|++.++|.+.-
T Consensus       197 ~~~~~al~~la~~s~Gslr~  216 (527)
T PRK14969        197 PFDATALQLLARAAAGSMRD  216 (527)
T ss_pred             CCCHHHHHHHHHHcCCCHHH
Confidence            12345678899999997743

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=96.99  E-value=0.0038  Score=69.63  Aligned_cols=108  Identities=9%  Similarity=0.052  Sum_probs=65.7

Q ss_pred             HHHHHHHHHHh----cCCeEEEEEeCCCCcc--cchhhccCCCCCCCCcE-EEEecCChhhhh-hcCCcceEEcCCCCHH
Q 000869           59 SRASRLHEQLK----REEKILIILDNIWKRV--DLETVGIPFGDDHRGCK-LLLTARDRTVLF-SMGSEKNFLVDILKEE  130 (1247)
Q Consensus        59 ~~~~~~~~~l~----~~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~-vliTtR~~~~~~-~~~~~~~~~l~~l~~~  130 (1247)
                      +.+..+.+.+.    .+++-++|+|+++...  ..+++...+........ |++|++...+.. .......+++.+++.+
T Consensus       124 d~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrSRc~~i~l~pl~~~  203 (351)
T PRK09112        124 DEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRSRCQPISLKPLDDD  203 (351)
T ss_pred             HHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHhhccEEEecCCCHH
Confidence            34444554444    2577799999998762  23333322222222333 555555443333 2234579999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHH
Q 000869          131 EAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       131 ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      +..+++.+......   -..+.+..+++.++|.|.....
T Consensus       204 ~~~~~L~~~~~~~~---~~~~~~~~i~~~s~G~pr~Al~  239 (351)
T PRK09112        204 ELKKALSHLGSSQG---SDGEITEALLQRSKGSVRKALL  239 (351)
T ss_pred             HHHHHHHHhhcccC---CCHHHHHHHHHHcCCCHHHHHH
Confidence            99999988542211   2245578899999999975543

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=96.94  E-value=0.027  Score=63.41  Aligned_cols=150  Identities=13%  Similarity=0.106  Sum_probs=81.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCe-EEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDR-VVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~-~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+||||+|+.+++...... +.. ++-++.+.......+.. ....+....+              .....+-++|+|+
T Consensus        47 ~G~GKt~~~~~l~~~l~~~~-~~~~~i~~~~~~~~~~~~~~~-~i~~~~~~~~--------------~~~~~~~vviiDe  110 (319)
T PRK00440         47 PGTGKTTAALALARELYGED-WRENFLELNASDERGIDVIRN-KIKEFARTAP--------------VGGAPFKIIFLDE  110 (319)
T ss_pred             CCCCHHHHHHHHHHHHcCCc-cccceEEeccccccchHHHHH-HHHHHHhcCC--------------CCCCCceEEEEeC
Confidence            69999999999999875332 211 22222222222221111 1111100000              0013466899999


Q ss_pred             CCCcc--cchhhccCCCCCCCCcEEEEecCCh-hhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHH
Q 000869           81 IWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEV  156 (1247)
Q Consensus        81 ~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i  156 (1247)
                      ++...  ..+.+...+......+++|+++... .+.. .......+++++++.++....+...+..... .-.++.+..+
T Consensus       111 ~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~~~~~~l~~~ei~~~l~~~~~~~~~-~i~~~al~~l  189 (319)
T PRK00440        111 ADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAVFRFSPLKKEAVAERLRYIAENEGI-EITDDALEAI  189 (319)
T ss_pred             cccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhheeeeCCCCHHHHHHHHHHHHHHcCC-CCCHHHHHHH
Confidence            87652  2333433333333456666666332 2211 1123457899999999999999988842221 1235678889


Q ss_pred             HHHcCCCchHHH
Q 000869          157 AKACKGLPIALT  168 (1247)
Q Consensus       157 ~~~~~g~Plai~  168 (1247)
                      ++.++|.+.-+.
T Consensus       190 ~~~~~gd~r~~~  201 (319)
T PRK00440        190 YYVSEGDMRKAI  201 (319)
T ss_pred             HHHcCCCHHHHH
Confidence            999999875533

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.94  E-value=0.0067  Score=71.68  Aligned_cols=102  Identities=10%  Similarity=0.094  Sum_probs=64.1

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..+.|...+........+|+ |+....+... ......++++.++.++..+.+.+.+..... 
T Consensus       118 g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi-  196 (624)
T PRK14959        118 GRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGV-  196 (624)
T ss_pred             CCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHHhhhhccccCCCCHHHHHHHHHHHHHHcCC-
Confidence            56779999999876  334555444433223444555 4443444322 234568899999999999999887732211 


Q ss_pred             hhhHHHHHHHHHHcCCCc-hHHHHHHHH
Q 000869          147 RELKSTATEVAKACKGLP-IALTTIARA  173 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~P-lai~~~a~~  173 (1247)
                      .-..+.+..|++..+|.+ .|+..+...
T Consensus       197 ~id~eal~lIA~~s~GdlR~Al~lLeql  224 (624)
T PRK14959        197 DYDPAAVRLIARRAAGSVRDSMSLLGQV  224 (624)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            123467888999999854 566665433

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=96.93  E-value=0.0083  Score=70.50  Aligned_cols=95  Identities=11%  Similarity=0.091  Sum_probs=58.9

Q ss_pred             CeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEE-EecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           72 EKILIILDNIWKR--VDLETVGIPFGDDHRGCKLL-LTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        72 ~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vl-iTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      ++-++|+|+++..  +.++++...+........+| +|+....+.. ....+..+++.+++.++....+...+..... .
T Consensus       119 ~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi-~  197 (605)
T PRK05896        119 KYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTIISRCQRYNFKKLNNSELQELLKSIAKKEKI-K  197 (605)
T ss_pred             CcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCC-C
Confidence            4456999999875  33444544333323344444 4555444433 2345678999999999999999987732211 1


Q ss_pred             hhHHHHHHHHHHcCCCchHH
Q 000869          148 ELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai  167 (1247)
                      -..+++..+++.++|.+..+
T Consensus       198 Is~eal~~La~lS~GdlR~A  217 (605)
T PRK05896        198 IEDNAIDKIADLADGSLRDG  217 (605)
T ss_pred             CCHHHHHHHHHHcCCcHHHH
Confidence            12456788999999976433

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=96.92  E-value=0.013  Score=65.73  Aligned_cols=107  Identities=10%  Similarity=0.030  Sum_probs=66.5

Q ss_pred             HHHHHHHHHHh----cCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCChh-hhh-hcCCcceEEcCCCCHH
Q 000869           59 SRASRLHEQLK----REEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEE  130 (1247)
Q Consensus        59 ~~~~~~~~~l~----~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~-~~~-~~~~~~~~~l~~l~~~  130 (1247)
                      +.+.++.+.+.    .+++.++|+|+++..  ....++...+..-..++.+|++|.+.. +.. .......+.+.+++.+
T Consensus       124 dqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~  203 (365)
T PRK07471        124 DEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPE  203 (365)
T ss_pred             HHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHH
Confidence            34444444443    256778999999875  223344333333334555666665553 322 2345679999999999


Q ss_pred             HHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHH
Q 000869          131 EAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       131 ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      +..+++.+..+..     ..+....+++.++|.|.....+
T Consensus       204 ~i~~~L~~~~~~~-----~~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        204 DVIDALAAAGPDL-----PDDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             HHHHHHHHhcccC-----CHHHHHHHHHHcCCCHHHHHHH
Confidence            9999998876421     1122367899999999755443

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

Probab=96.91  E-value=0.05  Score=57.71  Aligned_cols=142  Identities=21%  Similarity=0.256  Sum_probs=88.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+||||||+-++..-+...    ..||..+.......-.+.|.++-             ... ..+ .++|.+|.+|.|
T Consensus       171 pG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~a-------------q~~-~~l-~krkTilFiDEi  231 (554)
T KOG2028|consen  171 PGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQA-------------QNE-KSL-TKRKTILFIDEI  231 (554)
T ss_pred             CCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHH-------------HHH-Hhh-hcceeEEEeHHh
Confidence            79999999999998766432    45777665443333333333221             000 112 378999999999


Q ss_pred             CCc--ccchhhccCCCCCCCCcEEEE--ecCChhhhh---hcCCcceEEcCCCCHHHHHHHHHHHh---CCC------CC
Q 000869           82 WKR--VDLETVGIPFGDDHRGCKLLL--TARDRTVLF---SMGSEKNFLVDILKEEEAWRLFKLMA---GDD------VE  145 (1247)
Q Consensus        82 ~~~--~~~~~l~~~~~~~~~~~~vli--TtR~~~~~~---~~~~~~~~~l~~l~~~ea~~l~~~~~---~~~------~~  145 (1247)
                      ..-  .+.+.|   ++....|.-++|  ||.++....   .+..+.++-++.|..++...++.+..   ++.      -+
T Consensus       232 HRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l~dser~~~~l~  308 (554)
T KOG2028|consen  232 HRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASLGDSERPTDPLP  308 (554)
T ss_pred             hhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhhccccccCCCCC
Confidence            754  344443   344456776666  888876533   34567799999999999999998854   221      11


Q ss_pred             Ch---hhHHHHHHHHHHcCCCch
Q 000869          146 NR---ELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       146 ~~---~~~~~~~~i~~~~~g~Pl  165 (1247)
                      .+   -...+..-++..++|-..
T Consensus       309 n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  309 NSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             CcchhhhHHHHHHHHHhcCchHH
Confidence            11   123556677778888653

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

Probab=96.87  E-value=0.014  Score=61.82  Aligned_cols=166  Identities=17%  Similarity=0.171  Sum_probs=101.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCC----CeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHH-HHHHHHHhcCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLF----DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRA-SRLHEQLKREEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f----~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~-~~~~~~l~~~~~~Ll   76 (1247)
                      +|+|||++++++++.+.....-    -.|+.|......+...++..|+..++.+.......... ..+.+.++.-+--+|
T Consensus        70 snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmL  149 (302)
T PF05621_consen   70 SNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRML  149 (302)
T ss_pred             CCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEE
Confidence            5899999999999887643111    14778888899999999999999999887554443333 334444544567788


Q ss_pred             EEeCCCCc---------ccchhhccCCCCCCCCcEEEEecCChhhhhh-----cCCcceEEcCCCCHH-HHHHHHHHHh-
Q 000869           77 ILDNIWKR---------VDLETVGIPFGDDHRGCKLLLTARDRTVLFS-----MGSEKNFLVDILKEE-EAWRLFKLMA-  140 (1247)
Q Consensus        77 vlDd~~~~---------~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~-----~~~~~~~~l~~l~~~-ea~~l~~~~~-  140 (1247)
                      |+|.+.+.         +.++.+ ..+.+.-.-+-|.+-|++..-+-.     .....++.++.-..+ |...|+.... 
T Consensus       150 IIDE~H~lLaGs~~~qr~~Ln~L-K~L~NeL~ipiV~vGt~~A~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~  228 (302)
T PF05621_consen  150 IIDEFHNLLAGSYRKQREFLNAL-KFLGNELQIPIVGVGTREAYRALRTDPQLASRFEPFELPRWELDEEFRRLLASFER  228 (302)
T ss_pred             EeechHHHhcccHHHHHHHHHHH-HHHhhccCCCeEEeccHHHHHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHH
Confidence            99999774         111222 122222334456666644332221     122456677765554 4445554443 


Q ss_pred             --C-CCCCChhhHHHHHHHHHHcCCCchHHH
Q 000869          141 --G-DDVENRELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       141 --~-~~~~~~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                        . .....-...+.+..|.+.++|..--+.
T Consensus       229 ~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~  259 (302)
T PF05621_consen  229 ALPLRKPSNLASPELARRIHERSEGLIGELS  259 (302)
T ss_pred             hCCCCCCCCCCCHHHHHHHHHHcCCchHHHH
Confidence              1 112223356789999999999874443

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

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=96.86  E-value=0.0062  Score=69.43  Aligned_cols=141  Identities=18%  Similarity=0.235  Sum_probs=77.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+++++.....  |     +.+..    ..+...   .++      ........+.+......+.+|++|++
T Consensus       165 pGtGKT~lakaia~~l~~~--~-----~~v~~----~~l~~~---~~g------~~~~~i~~~f~~a~~~~p~il~iDEi  224 (364)
T TIGR01242       165 PGTGKTLLAKAVAHETNAT--F-----IRVVG----SELVRK---YIG------EGARLVREIFELAKEKAPSIIFIDEI  224 (364)
T ss_pred             CCCCHHHHHHHHHHhCCCC--E-----Eecch----HHHHHH---hhh------HHHHHHHHHHHHHHhcCCcEEEhhhh
Confidence            7999999999999876532  2     22211    111111   111      11122333444444457789999999


Q ss_pred             CCcc----------------cchhhccCCC--CCCCCcEEEEecCChhhhh-hc----CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRV----------------DLETVGIPFG--DDHRGCKLLLTARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~----------------~~~~l~~~~~--~~~~~~~vliTtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +...                .+..+...+.  ....+.+||.||....... .+    .....+.++..+.++..++|..
T Consensus       225 D~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~  304 (364)
T TIGR01242       225 DAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKI  304 (364)
T ss_pred             hhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHH
Confidence            7541                0111111111  1123667888887544322 11    2245788999999999999999


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCCc
Q 000869          139 MAGDDVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      ++.......+  .....+++.+.|..
T Consensus       305 ~~~~~~l~~~--~~~~~la~~t~g~s  328 (364)
T TIGR01242       305 HTRKMKLAED--VDLEAIAKMTEGAS  328 (364)
T ss_pred             HHhcCCCCcc--CCHHHHHHHcCCCC
Confidence            8843222211  12466778887764

Many proteins may score above the trusted cutoff because an internal

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

Probab=96.81  E-value=0.03  Score=68.53  Aligned_cols=92  Identities=13%  Similarity=0.168  Sum_probs=57.0

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE--ecCChhh--hh-hcCCcceEEcCCCCHHHHHHHHHHHhCC-
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL--TARDRTV--LF-SMGSEKNFLVDILKEEEAWRLFKLMAGD-  142 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli--TtR~~~~--~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~-  142 (1247)
                      +++.+||+|+++..  .+.+.+...+   ..|..++|  ||+++..  .. .......+.+++++.++...++...+.+ 
T Consensus       108 ~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~  184 (725)
T PRK13341        108 GKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALVSRSRLFRLKSLSDEDLHQLLKRALQDK  184 (725)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhhccccceecCCCCHHHHHHHHHHHHHHH
Confidence            56789999999864  3445554322   23555555  4444321  11 1123568999999999999999887731 


Q ss_pred             -----CCCChhhHHHHHHHHHHcCCCch
Q 000869          143 -----DVENRELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       143 -----~~~~~~~~~~~~~i~~~~~g~Pl  165 (1247)
                           .....-..++...|++.+.|..-
T Consensus       185 ~~~~g~~~v~I~deaL~~La~~s~GD~R  212 (725)
T PRK13341        185 ERGYGDRKVDLEPEAEKHLVDVANGDAR  212 (725)
T ss_pred             HhhcCCcccCCCHHHHHHHHHhCCCCHH
Confidence                 11112234667888888888653

>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=96.80  E-value=0.0041  Score=60.80  Aligned_cols=96  Identities=16%  Similarity=0.152  Sum_probs=53.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+++++.....  -..+++++.............+...            ............++.++|+|++
T Consensus        28 ~G~GKT~l~~~i~~~~~~~--~~~v~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~lilDe~   93 (151)
T cd00009          28 PGTGKTTLARAIANELFRP--GAPFLYLNASDLLEGLVVAELFGHF------------LVRLLFELAEKAKPGVLFIDEI   93 (151)
T ss_pred             CCCCHHHHHHHHHHHhhcC--CCCeEEEehhhhhhhhHHHHHhhhh------------hHhHHHHhhccCCCeEEEEeCh
Confidence            7999999999999987522  3457778766544332222111100            0111111112257889999999


Q ss_pred             CCc-----ccchhhccCCCCC---CCCcEEEEecCChh
Q 000869           82 WKR-----VDLETVGIPFGDD---HRGCKLLLTARDRT  111 (1247)
Q Consensus        82 ~~~-----~~~~~l~~~~~~~---~~~~~vliTtR~~~  111 (1247)
                      +..     ..+..........   ..+..||+||....
T Consensus        94 ~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          94 DSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             hhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence            853     2222222222211   35778888887664

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.

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=96.78  E-value=0.00019  Score=64.35  Aligned_cols=83  Identities=20%  Similarity=0.313  Sum_probs=74.5

Q ss_pred             cceEEEccCCccccccCcC--CCCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEE
Q 000869          323 KCYAISIRDSSIHELLEGL--ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLC  400 (1247)
Q Consensus       323 ~~~~l~l~~~~i~~~~~~~--~~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~  400 (1247)
                      ++..+++++|..+++|+.+  .++.+++|++++|.+.   ++|.+ |..++.||.|+++.|.+...|.-|..|.+|-+|+
T Consensus        54 el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neis---dvPeE-~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen   54 ELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEIS---DVPEE-LAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             eEEEEecccchhhhCCHHHhhccchhhhhhcchhhhh---hchHH-HhhhHHhhhcccccCccccchHHHHHHHhHHHhc
Confidence            4677899999999999755  7789999999999998   77888 7999999999999999999999999999999999


Q ss_pred             ccCcCCCCc
Q 000869          401 LDQCILGDV  409 (1247)
Q Consensus       401 L~~~~l~~~  409 (1247)
                      ..++.+..+
T Consensus       130 s~~na~~ei  138 (177)
T KOG4579|consen  130 SPENARAEI  138 (177)
T ss_pred             CCCCccccC
Confidence            999987665

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=96.78  E-value=0.018  Score=67.22  Aligned_cols=99  Identities=10%  Similarity=0.097  Sum_probs=63.2

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCCh-hhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..+++...+..-...+++|++|.+. .+.. -......+++.+++.++..+.+...+..... 
T Consensus       116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi-  194 (535)
T PRK08451        116 ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEGV-  194 (535)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCC-
Confidence            56778999999876  33444444443333456656555543 2222 1234678999999999999999887732221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      .-.++++..|++.++|.+.-+...
T Consensus       195 ~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        195 SYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             CCCHHHHHHHHHHcCCcHHHHHHH
Confidence            123567889999999988544443

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=96.75  E-value=0.018  Score=63.74  Aligned_cols=94  Identities=10%  Similarity=0.094  Sum_probs=58.4

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCChh-hhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~-~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..+++.-.+..-..++.+|++|.+.. +.. .......+.+.+++.+++.+.+.+..+. .  
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~-~--  181 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE-S--  181 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc-C--
Confidence            44555577999875  233333333333234566666665553 332 2345678999999999999999876521 1  


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                        ..+.+..++..++|.|.....
T Consensus       182 --~~~~~~~~l~la~Gsp~~A~~  202 (328)
T PRK05707        182 --DERERIELLTLAGGSPLRALQ  202 (328)
T ss_pred             --ChHHHHHHHHHcCCCHHHHHH
Confidence              233456778999999965443

>TIGR00767 rho transcription termination factor Rho

Probab=96.71  E-value=0.0046  Score=68.25  Aligned_cols=82  Identities=12%  Similarity=0.237  Sum_probs=54.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc--cCHHHHHHHHHH-----HhCCCcccc-chHHHH-HHHHHHHhcCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT--IDIKKIQQAIAE-----KLGLVLQEE-TESSRA-SRLHEQLKREE   72 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~--~~~~~~~~~i~~-----~l~~~~~~~-~~~~~~-~~~~~~l~~~~   72 (1247)
                      +|+|||||++.+++.... ++|+..+|+.+.+.  .+..++++.+..     +++...... .-...+ +........|+
T Consensus       177 ~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~Ae~~~~~Gk  255 (415)
T TIGR00767       177 PKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVEHKK  255 (415)
T ss_pred             CCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHHHHHHHHcCC
Confidence            699999999999998764 37999999988754  789999999943     333211100 001111 11222223489


Q ss_pred             eEEEEEeCCCCc
Q 000869           73 KILIILDNIWKR   84 (1247)
Q Consensus        73 ~~LlvlDd~~~~   84 (1247)
                      +++|++|.+..-
T Consensus       256 dVVLlIDEitR~  267 (415)
T TIGR00767       256 DVVILLDSITRL  267 (415)
T ss_pred             CeEEEEEChhHH
Confidence            999999999754

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

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=96.70  E-value=0.015  Score=67.57  Aligned_cols=152  Identities=15%  Similarity=0.146  Sum_probs=87.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.||+++++.......=..++|++..      ++...+...+...        ....+.+.+.  ..-+||+||+
T Consensus       145 ~G~GKThL~~ai~~~l~~~~~~~~v~yi~~~------~~~~~~~~~~~~~--------~~~~~~~~~~--~~dlLiiDDi  208 (405)
T TIGR00362       145 VGLGKTHLLHAIGNEILENNPNAKVVYVSSE------KFTNDFVNALRNN--------KMEEFKEKYR--SVDLLLIDDI  208 (405)
T ss_pred             CCCcHHHHHHHHHHHHHHhCCCCcEEEEEHH------HHHHHHHHHHHcC--------CHHHHHHHHH--hCCEEEEehh
Confidence            6999999999999988643111347777643      2333444443211        1223334443  2348889999


Q ss_pred             CCccc----chhhccCCCC-CCCCcEEEEecCChhh---------hhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRVD----LETVGIPFGD-DHRGCKLLLTARDRTV---------LFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~~----~~~l~~~~~~-~~~~~~vliTtR~~~~---------~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +....    .+.+...+.. ...+..+|+|+....-         ..++.....+.+++.+.++-.+++.+.+..... .
T Consensus       209 ~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~~~~~~~~-~  287 (405)
T TIGR00362       209 QFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQKKAEEEGL-E  287 (405)
T ss_pred             hhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHHHHHHcCC-C
Confidence            85421    1111111100 1134567887754221         112333457899999999999999999843221 2


Q ss_pred             hhHHHHHHHHHHcCCCchHHHHH
Q 000869          148 ELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      -.++....|++...|..-.+.-+
T Consensus       288 l~~e~l~~ia~~~~~~~r~l~~~  310 (405)
T TIGR00362       288 LPDEVLEFIAKNIRSNVRELEGA  310 (405)
T ss_pred             CCHHHHHHHHHhcCCCHHHHHHH
Confidence            23567788888888876554433

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).

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=96.69  E-value=0.016  Score=69.41  Aligned_cols=99  Identities=11%  Similarity=0.100  Sum_probs=63.8

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEE-EecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLL-LTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vl-iTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  ..+++...+..-...+++| +|++...+... ...+..+++..++.++..+.+.+.+..... 
T Consensus       131 a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi-  209 (598)
T PRK09111        131 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGV-  209 (598)
T ss_pred             CCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCC-
Confidence            456789999998763  3455544444333455554 45554444432 235678999999999999999988732221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      .-..+.+..|++.++|.+.-+...
T Consensus       210 ~i~~eAl~lIa~~a~Gdlr~al~~  233 (598)
T PRK09111        210 EVEDEALALIARAAEGSVRDGLSL  233 (598)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            123467888999999988555443

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.68  E-value=0.012  Score=67.77  Aligned_cols=98  Identities=7%  Similarity=0.032  Sum_probs=63.3

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++..  +.++.+...+......+.+|+ |++...+... ......+++.+++.++..+.+...+.... .
T Consensus       126 ~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g-~  204 (397)
T PRK14955        126 GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLEEIQQQLQGICEAEG-I  204 (397)
T ss_pred             CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcC-C
Confidence            56778999999865  345555555444444555555 4444444332 12356888999999999999988873211 1


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      .-..+.+..|++.++|.+--+..
T Consensus       205 ~i~~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        205 SVDADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHH
Confidence            12356789999999997754433

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=96.68  E-value=0.037  Score=64.29  Aligned_cols=151  Identities=13%  Similarity=0.159  Sum_probs=88.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCC-CeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLF-DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f-~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+|||.||.++++..... .+ ..++|++..      ++...+...+...        ....+.++.. ...-+||+||
T Consensus       139 ~G~GKTHLl~ai~~~l~~~-~~~~~v~yi~~~------~f~~~~~~~~~~~--------~~~~f~~~~~-~~~dvLlIDD  202 (440)
T PRK14088        139 VGLGKTHLLQSIGNYVVQN-EPDLRVMYITSE------KFLNDLVDSMKEG--------KLNEFREKYR-KKVDVLLIDD  202 (440)
T ss_pred             CCCcHHHHHHHHHHHHHHh-CCCCeEEEEEHH------HHHHHHHHHHhcc--------cHHHHHHHHH-hcCCEEEEec
Confidence            6999999999999987643 23 357888753      3445555444211        1222333333 3456889999


Q ss_pred             CCCccc---c-hhhccCCCC-CCCCcEEEEecC-Chhhhh--------hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           81 IWKRVD---L-ETVGIPFGD-DHRGCKLLLTAR-DRTVLF--------SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        81 ~~~~~~---~-~~l~~~~~~-~~~~~~vliTtR-~~~~~~--------~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++....   . +.+...+.. ...|..||+||. .+.-..        ++.....+++++.+.++-.+++.+.+.... .
T Consensus       203 i~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~~~~~~~-~  281 (440)
T PRK14088        203 VQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARKMLEIEH-G  281 (440)
T ss_pred             hhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHHHHHhcC-C
Confidence            975311   1 112111110 112446888874 332211        234456889999999999999999884321 1


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      .-.++++.-|++...|.--.+.-
T Consensus       282 ~l~~ev~~~Ia~~~~~~~R~L~g  304 (440)
T PRK14088        282 ELPEEVLNFVAENVDDNLRRLRG  304 (440)
T ss_pred             CCCHHHHHHHHhccccCHHHHHH
Confidence            12346788888888876544443

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

Probab=96.67  E-value=0.064  Score=54.71  Aligned_cols=168  Identities=16%  Similarity=0.203  Sum_probs=95.2

Q ss_pred             CccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccc--hHHHH-HHHHHHHhcCCe-EEEEE
Q 000869            3 GIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEET--ESSRA-SRLHEQLKREEK-ILIIL   78 (1247)
Q Consensus         3 GiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~--~~~~~-~~~~~~l~~~~~-~Llvl   78 (1247)
                      |.|||.++++....+..+   +..+-+......+...+...+.-.+..+.....  ..+.+ ..+..-..+++| +.+++
T Consensus        61 GsGKTv~~Ral~~s~~~d---~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~g~r~v~l~v  137 (269)
T COG3267          61 GSGKTVLRRALLASLNED---QVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKKGKRPVVLMV  137 (269)
T ss_pred             CCchhHHHHHHHHhcCCC---ceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHhCCCCeEEee
Confidence            899999999666554422   222222334556777788888888876432221  11222 334444445777 99999


Q ss_pred             eCCCCc--ccchhhc--cCCCC-CCCCcEEEEecCCh-------hhhhhcCC--cceEEcCCCCHHHHHHHHHHHhC-CC
Q 000869           79 DNIWKR--VDLETVG--IPFGD-DHRGCKLLLTARDR-------TVLFSMGS--EKNFLVDILKEEEAWRLFKLMAG-DD  143 (1247)
Q Consensus        79 Dd~~~~--~~~~~l~--~~~~~-~~~~~~vliTtR~~-------~~~~~~~~--~~~~~l~~l~~~ea~~l~~~~~~-~~  143 (1247)
                      |++.+.  ...+.+.  ..+-. ....-+|+..-..+       .+....+.  ...|++.|++++++..++..+.+ ..
T Consensus       138 dEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~yl~~~Le~a~  217 (269)
T COG3267         138 DEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAETGLYLRHRLEGAG  217 (269)
T ss_pred             hhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHHHHHHHHHHHhccC
Confidence            999775  2233221  11111 11111233322111       11111122  22389999999999999988872 21


Q ss_pred             -CCChhhHHHHHHHHHHcCCCchHHHHHHHH
Q 000869          144 -VENRELKSTATEVAKACKGLPIALTTIARA  173 (1247)
Q Consensus       144 -~~~~~~~~~~~~i~~~~~g~Plai~~~a~~  173 (1247)
                       ...--..+....|.....|.|.+|..++..
T Consensus       218 ~~~~l~~~~a~~~i~~~sqg~P~lin~~~~~  248 (269)
T COG3267         218 LPEPLFSDDALLLIHEASQGIPRLINNLATL  248 (269)
T ss_pred             CCcccCChhHHHHHHHHhccchHHHHHHHHH
Confidence             112224567888999999999999887643

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=96.66  E-value=0.025  Score=68.15  Aligned_cols=98  Identities=11%  Similarity=0.128  Sum_probs=61.8

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +.+.++...+........ |++|++...+... ...+..+++.+++.++..+.+...+..... 
T Consensus       117 g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~kegI-  195 (725)
T PRK07133        117 SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKENI-  195 (725)
T ss_pred             CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcCC-
Confidence            56778999999865  334455433333223333 5556655555432 345678999999999999999887632111 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      ....+++..|++.++|-+.-+..
T Consensus       196 ~id~eAl~~LA~lS~GslR~Als  218 (725)
T PRK07133        196 SYEKNALKLIAKLSSGSLRDALS  218 (725)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHH
Confidence            12245688899999997643333

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.64  E-value=0.031  Score=65.48  Aligned_cols=100  Identities=10%  Similarity=0.090  Sum_probs=61.8

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..+++...+........+|+ ||+...+... ......+++.+++.++..+.+...+..... 
T Consensus       118 ~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi-  196 (486)
T PRK14953        118 GKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKI-  196 (486)
T ss_pred             CCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCC-
Confidence            56779999999865  234444433333333444444 5554443321 234568899999999999999987732111 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTIA  171 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~a  171 (1247)
                      ....+++..|++.++|.+..+....
T Consensus       197 ~id~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        197 EYEEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            2234677889999999775444443

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=96.60  E-value=0.012  Score=63.50  Aligned_cols=124  Identities=14%  Similarity=0.184  Sum_probs=64.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+||||+|+.+++............++.++..    ++..   ..++.      .......+..+.   ...+|++|++
T Consensus        51 pGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~----~l~~---~~~g~------~~~~~~~~~~~a---~~~VL~IDE~  114 (261)
T TIGR02881        51 PGTGKTTVARILGKLFKEMNVLSKGHLIEVERA----DLVG---EYIGH------TAQKTREVIKKA---LGGVLFIDEA  114 (261)
T ss_pred             CCCCHHHHHHHHHHHHHhcCcccCCceEEecHH----Hhhh---hhccc------hHHHHHHHHHhc---cCCEEEEech
Confidence            799999999999987643221121122222211    1111   11110      112222333322   2358899999


Q ss_pred             CCc----------ccchhhccCCCCCCCCcEEEEecCChhhhh--------hcCCcceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKR----------VDLETVGIPFGDDHRGCKLLLTARDRTVLF--------SMGSEKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~----------~~~~~l~~~~~~~~~~~~vliTtR~~~~~~--------~~~~~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      +..          +..+.+...+........+++++.......        .-.....+++++++.+|-.+++.+.+.
T Consensus       115 ~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       115 YSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             hhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHH
Confidence            752          223444443333333445556654432211        101234688999999999999998884

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=96.59  E-value=0.024  Score=61.71  Aligned_cols=124  Identities=11%  Similarity=0.084  Sum_probs=66.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+.+++...........-|+.++.    .++    ...+....     ......+.+..   ..-+|++|++
T Consensus        67 pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~l----~~~~~g~~-----~~~~~~~~~~a---~~gvL~iDEi  130 (284)
T TIGR02880        67 PGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DDL----VGQYIGHT-----APKTKEILKRA---MGGVLFIDEA  130 (284)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HHH----hHhhcccc-----hHHHHHHHHHc---cCcEEEEech
Confidence            79999999999988776432222212333221    111    11111111     11222333322   3368889999


Q ss_pred             CCc-----------ccchhhccCCCCCCCCcEEEEecCChhhhhhc--------CCcceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKR-----------VDLETVGIPFGDDHRGCKLLLTARDRTVLFSM--------GSEKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~-----------~~~~~l~~~~~~~~~~~~vliTtR~~~~~~~~--------~~~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      +..           +.++.+...+.....+.+||.++-........        .....+++++++.+|-.+++...+.
T Consensus       131 ~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I~~~~l~  209 (284)
T TIGR02880       131 YYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVIAGLMLK  209 (284)
T ss_pred             hhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHHHHHHHH
Confidence            732           12233333333344566677776543221111        1245789999999999999998883

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.

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=96.55  E-value=0.024  Score=70.31  Aligned_cols=97  Identities=9%  Similarity=0.052  Sum_probs=62.1

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE-ecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL-TARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli-TtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++.-++|||+++..  +..+.|...+..-...+.+|+ ||+...+... ......|++..++.++..+.+.+.+......
T Consensus       119 ~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv~  198 (824)
T PRK07764        119 SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGVP  198 (824)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCCC
Confidence            56678899999876  334455444444434555554 5444444432 3456789999999999999998877322211


Q ss_pred             hhhHHHHHHHHHHcCCCchHHH
Q 000869          147 RELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                       ...+....|++.++|.+..+.
T Consensus       199 -id~eal~lLa~~sgGdlR~Al  219 (824)
T PRK07764        199 -VEPGVLPLVIRAGGGSVRDSL  219 (824)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHH
Confidence             234566788999999774433

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.48  E-value=0.032  Score=66.91  Aligned_cols=94  Identities=7%  Similarity=0.030  Sum_probs=60.0

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEE-EEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKL-LLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~v-liTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++...  ..++|...+..-...+.+ ++|++...+.. .......+++.+++.++....+.+.+..... 
T Consensus       126 ~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi-  204 (620)
T PRK14954        126 GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIASRCQRFNFKRIPLDEIQSQLQMICRAEGI-  204 (620)
T ss_pred             CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCC-
Confidence            566788999998762  344554444443334444 44555444443 2345778999999999999888887732111 


Q ss_pred             hhhHHHHHHHHHHcCCCch
Q 000869          147 RELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      .-..+.+..|++.++|..-
T Consensus       205 ~I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        205 QIDADALQLIARKAQGSMR  223 (620)
T ss_pred             CCCHHHHHHHHHHhCCCHH
Confidence            1234678889999999654

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.47  E-value=0.037  Score=66.78  Aligned_cols=99  Identities=12%  Similarity=0.056  Sum_probs=61.1

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEE-EEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKL-LLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~v-liTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..+++...+..-.....+ ++|+....+.. .......+++..++.++..+.+.+.+......
T Consensus       120 ~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~  199 (620)
T PRK14948        120 ARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIE  199 (620)
T ss_pred             CCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCC
Confidence            46678899999875  3345554444433334444 44554443333 22456788889999999988888877432111


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                       -..+.+..|++.++|.+..+...
T Consensus       200 -is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        200 -IEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHHH
Confidence             12356889999999987544443

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.46  E-value=0.038  Score=66.95  Aligned_cols=101  Identities=10%  Similarity=0.069  Sum_probs=63.7

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEec-CChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTA-RDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTt-R~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++..  +..+.+...+......+.+|++| +...+.. .......+++..++.++....+.+.+......
T Consensus       119 ~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~  198 (585)
T PRK14950        119 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATILSRCQRFDFHRHSVADMAAHLRKIAAAEGIN  198 (585)
T ss_pred             CCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCC
Confidence            46778999999865  33455544443333455555555 3333332 22345678899999999999998887432211


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTIAR  172 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~a~  172 (1247)
                       -..+.+..|++.++|.+..+...-.
T Consensus       199 -i~~eal~~La~~s~Gdlr~al~~Le  223 (585)
T PRK14950        199 -LEPGALEAIARAATGSMRDAENLLQ  223 (585)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHHHHH
Confidence             2346788999999998865554433

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.42  E-value=0.042  Score=65.43  Aligned_cols=94  Identities=12%  Similarity=0.081  Sum_probs=60.0

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +..++|...+..-..... |++||....+... ......|++..++.++..+.+.+.+..... 
T Consensus       117 ~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi-  195 (584)
T PRK14952        117 SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGV-  195 (584)
T ss_pred             CCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCC-
Confidence            56678899999865  334454444443333444 4455555544432 244678999999999999999887732221 


Q ss_pred             hhhHHHHHHHHHHcCCCch
Q 000869          147 RELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      .-..+....|++..+|-+.
T Consensus       196 ~i~~~al~~Ia~~s~GdlR  214 (584)
T PRK14952        196 VVDDAVYPLVIRAGGGSPR  214 (584)
T ss_pred             CCCHHHHHHHHHHcCCCHH
Confidence            1224567888999999774

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=96.34  E-value=0.049  Score=64.23  Aligned_cols=150  Identities=14%  Similarity=0.113  Sum_probs=87.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|.|||-|+.++++.......-..|+|++...      +..++...+..        .....+.+++.  .-=+|||||+
T Consensus       323 sGsGKTHLL~AIa~~a~~~~~g~~V~Yitaee------f~~el~~al~~--------~~~~~f~~~y~--~~DLLlIDDI  386 (617)
T PRK14086        323 SGLGKTHLLHAIGHYARRLYPGTRVRYVSSEE------FTNEFINSIRD--------GKGDSFRRRYR--EMDILLVDDI  386 (617)
T ss_pred             CCCCHHHHHHHHHHHHHHhCCCCeEEEeeHHH------HHHHHHHHHHh--------ccHHHHHHHhh--cCCEEEEehh
Confidence            59999999999999876421124577776533      33333333211        11223444443  3467889999


Q ss_pred             CCccc---c-hhhccCCCC-CCCCcEEEEecCChh---------hhhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRVD---L-ETVGIPFGD-DHRGCKLLLTARDRT---------VLFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~~---~-~~l~~~~~~-~~~~~~vliTtR~~~---------~~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +....   + +.+...+-. ...|..|||||+...         +..++.....++++..+.+.-.+++.+++..... .
T Consensus       387 q~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kka~~r~l-~  465 (617)
T PRK14086        387 QFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKKAVQEQL-N  465 (617)
T ss_pred             ccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHHHHhcCC-C
Confidence            76521   1 111111111 123556888887532         2224456779999999999999999999843221 2


Q ss_pred             hhHHHHHHHHHHcCCCchHHH
Q 000869          148 ELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      -..+++.-|++.+.+..-.+.
T Consensus       466 l~~eVi~yLa~r~~rnvR~Le  486 (617)
T PRK14086        466 APPEVLEFIASRISRNIRELE  486 (617)
T ss_pred             CCHHHHHHHHHhccCCHHHHH
Confidence            224667777777766544333

>CHL00181 cbbX CbbX; Provisional

Probab=96.33  E-value=0.048  Score=59.27  Aligned_cols=124  Identities=13%  Similarity=0.119  Sum_probs=66.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+.+++.......-...-|+.++    ..++....   .|..      ......+.+..   ..-+|++|++
T Consensus        68 pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~----~~~l~~~~---~g~~------~~~~~~~l~~a---~ggVLfIDE~  131 (287)
T CHL00181         68 PGTGKTTVALKMADILYKLGYIKKGHLLTVT----RDDLVGQY---IGHT------APKTKEVLKKA---MGGVLFIDEA  131 (287)
T ss_pred             CCCCHHHHHHHHHHHHHHcCCCCCCceEEec----HHHHHHHH---hccc------hHHHHHHHHHc---cCCEEEEEcc
Confidence            7999999999999876432211111133332    11121111   1211      11122233322   3358999999


Q ss_pred             CCc-----------ccchhhccCCCCCCCCcEEEEecCChhhhh--------hcCCcceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKR-----------VDLETVGIPFGDDHRGCKLLLTARDRTVLF--------SMGSEKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~-----------~~~~~l~~~~~~~~~~~~vliTtR~~~~~~--------~~~~~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      +..           +..+.+...+.....+.+||.++....+..        .-.....+.+++++.+|..+++...+.
T Consensus       132 ~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~I~~~~l~  210 (287)
T CHL00181        132 YYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQIAKIMLE  210 (287)
T ss_pred             chhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHHHHHHHHH
Confidence            742           122333333333444566777775433211        112345789999999999999998883

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=96.33  E-value=0.032  Score=65.62  Aligned_cols=151  Identities=15%  Similarity=0.120  Sum_probs=88.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||+++++.......-..++|++...      +...+...+...        ....+.+.+.  ..-+||+||+
T Consensus       157 ~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~~------~~~~~~~~~~~~--------~~~~~~~~~~--~~dlLiiDDi  220 (450)
T PRK00149        157 VGLGKTHLLHAIGNYILEKNPNAKVVYVTSEK------FTNDFVNALRNN--------TMEEFKEKYR--SVDVLLIDDI  220 (450)
T ss_pred             CCCCHHHHHHHHHHHHHHhCCCCeEEEEEHHH------HHHHHHHHHHcC--------cHHHHHHHHh--cCCEEEEehh
Confidence            69999999999999987431123467776543      223333333211        1233444443  3458899999


Q ss_pred             CCccc----chhhccCCCC-CCCCcEEEEecCChhh---------hhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRVD----LETVGIPFGD-DHRGCKLLLTARDRTV---------LFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~~----~~~l~~~~~~-~~~~~~vliTtR~~~~---------~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +....    .+.+...+.. ...|..|++||....-         ..++.....+++++.+.++-.+++.+.+.... ..
T Consensus       221 ~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~~~~~~~-~~  299 (450)
T PRK00149        221 QFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKKKAEEEG-ID  299 (450)
T ss_pred             hhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHHHHHHcC-CC
Confidence            75411    1112111100 1124457887765421         11344456899999999999999999984321 12


Q ss_pred             hhHHHHHHHHHHcCCCchHHHH
Q 000869          148 ELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      -.+++..-|++.+.|..-.+.-
T Consensus       300 l~~e~l~~ia~~~~~~~R~l~~  321 (450)
T PRK00149        300 LPDEVLEFIAKNITSNVRELEG  321 (450)
T ss_pred             CCHHHHHHHHcCcCCCHHHHHH
Confidence            2346788889988887654443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=96.28  E-value=0.052  Score=65.55  Aligned_cols=97  Identities=8%  Similarity=0.069  Sum_probs=63.1

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEE-EecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLL-LTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vl-iTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++..  +..++|...+..-...+.+| +||+...+... ...+..+++.+++.++..+.+.+.+..... 
T Consensus       120 ~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi-  198 (614)
T PRK14971        120 GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI-  198 (614)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC-
Confidence            46678899999876  33455544444433445544 45555555442 345678999999999999999987743221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHH
Q 000869          147 RELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      .-..+.+..|++.++|-.--+.
T Consensus       199 ~i~~~al~~La~~s~gdlr~al  220 (614)
T PRK14971        199 TAEPEALNVIAQKADGGMRDAL  220 (614)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHH
Confidence            1224578889999998764433

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=96.28  E-value=0.05  Score=63.32  Aligned_cols=95  Identities=12%  Similarity=0.143  Sum_probs=60.1

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEec-CChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTA-RDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTt-R~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +.+-++|+|+++..  +..+.+...+........+|++| +...+... ......++++++++++..+.+...+..... 
T Consensus       120 ~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~-  198 (451)
T PRK06305        120 SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGI-  198 (451)
T ss_pred             CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCC-
Confidence            56778999999765  23344444444333355555555 43333322 245678999999999999988887732211 


Q ss_pred             hhhHHHHHHHHHHcCCCchH
Q 000869          147 RELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      .-.++.+..|++.++|.+.-
T Consensus       199 ~i~~~al~~L~~~s~gdlr~  218 (451)
T PRK06305        199 ETSREALLPIARAAQGSLRD  218 (451)
T ss_pred             CCCHHHHHHHHHHcCCCHHH
Confidence            12356788999999997643

>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=96.27  E-value=0.012  Score=55.93  Aligned_cols=63  Identities=21%  Similarity=0.241  Sum_probs=39.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCC-eEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREE-KILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~-~~LlvlDd   80 (1247)
                      +|+|||++|+.+++...     ..++.++.+...+.               ........+..+.+...... +++|++||
T Consensus         7 ~G~GKT~l~~~la~~l~-----~~~~~i~~~~~~~~---------------~~~~~~~~i~~~~~~~~~~~~~~vl~iDe   66 (132)
T PF00004_consen    7 PGTGKTTLARALAQYLG-----FPFIEIDGSELISS---------------YAGDSEQKIRDFFKKAKKSAKPCVLFIDE   66 (132)
T ss_dssp             TTSSHHHHHHHHHHHTT-----SEEEEEETTHHHTS---------------STTHHHHHHHHHHHHHHHTSTSEEEEEET
T ss_pred             CCCCeeHHHHHHHhhcc-----cccccccccccccc---------------cccccccccccccccccccccceeeeecc
Confidence            79999999999999864     23566665542211               11122333444444443344 89999999


Q ss_pred             CCCc
Q 000869           81 IWKR   84 (1247)
Q Consensus        81 ~~~~   84 (1247)
                      ++..
T Consensus        67 ~d~l   70 (132)
T PF00004_consen   67 IDKL   70 (132)
T ss_dssp             GGGT
T ss_pred             chhc
Confidence            9765

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 ....

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.26  E-value=0.0021  Score=65.29  Aligned_cols=82  Identities=27%  Similarity=0.351  Sum_probs=44.9

Q ss_pred             CCCCcEEEccCcCCCCcccccCCCCCcEEEccCC--CCC-cCchhhcCCCCCcEEeccCCCCCcc---cChhhhcCCCCC
Q 000869          393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGS--GIV-KLPEELGQLTKLRHLDLSNCFKLKV---IAPNVISSLIRL  466 (1247)
Q Consensus       393 l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~--~i~-~lp~~i~~L~~L~~L~L~~~~~l~~---~~~~~~~~L~~L  466 (1247)
                      +..|+.|.+.++.++.+..+-.|++|++|.++.|  ++. .++....++++|++|++++| +++.   +.|  +.++.+|
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~N-ki~~lstl~p--l~~l~nL  118 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGN-KIKDLSTLRP--LKELENL  118 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCC-ccccccccch--hhhhcch
Confidence            3445555555555555555666666666666666  332 44444455566666666666 3332   222  4455566


Q ss_pred             CEEEeecCccc
Q 000869          467 EELYMSNCFVE  477 (1247)
Q Consensus       467 ~~L~l~~~~~~  477 (1247)
                      ..|++.+|...
T Consensus       119 ~~Ldl~n~~~~  129 (260)
T KOG2739|consen  119 KSLDLFNCSVT  129 (260)
T ss_pred             hhhhcccCCcc
Confidence            66666666443

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=96.25  E-value=0.18  Score=55.60  Aligned_cols=165  Identities=13%  Similarity=0.140  Sum_probs=89.2

Q ss_pred             CCccHHHHHHHHHHHhhhcc-------------CCCeEEEEEcCCccCHHHHHHHHHHHhC--CCccccchHHHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDK-------------LFDRVVFSEVSQTIDIKKIQQAIAEKLG--LVLQEETESSRASRLHE   66 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~-------------~f~~~~w~~~~~~~~~~~~~~~i~~~l~--~~~~~~~~~~~~~~~~~   66 (1247)
                      .|+||+++|.++++..-..+             ..+-+.|+.-....+-..+-...+...+  .........+.+.++.+
T Consensus        35 ~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~  114 (314)
T PRK07399         35 EGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQGKLITASEAEEAGLKRKAPPQIRLEQIREIKR  114 (314)
T ss_pred             CCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccccccchhhhhhccccccccccCcHHHHHHHHH
Confidence            59999999999998875432             1223445432110000000001111111  11111223344555555


Q ss_pred             HHhc----CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           67 QLKR----EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        67 ~l~~----~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      .+..    +.+-++|+|+++...  ...++.-.+..-....-|++|++...+.. -......+++.++++++..+.+.+.
T Consensus       115 ~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~  194 (314)
T PRK07399        115 FLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRL  194 (314)
T ss_pred             HHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHh
Confidence            5542    577889999997752  23333222222223344555555544444 2345789999999999999999987


Q ss_pred             hCCCCCChhhHHHHHHHHHHcCCCchHHHHH
Q 000869          140 AGDDVENRELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       140 ~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      .......    .....++...+|.|.....+
T Consensus       195 ~~~~~~~----~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        195 GDEEILN----INFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             hccccch----hHHHHHHHHcCCCHHHHHHH
Confidence            6321111    12357889999999655543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=96.24  E-value=0.067  Score=63.80  Aligned_cols=99  Identities=10%  Similarity=0.084  Sum_probs=62.9

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEec-CChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTA-RDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTt-R~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++..  +.++++...+........+|.+| ....+... ......+++.+++.++..+.+.+.+..... 
T Consensus       118 ~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi-  196 (563)
T PRK06647        118 SRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQI-  196 (563)
T ss_pred             CCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHHHhceEEEecCCCHHHHHHHHHHHHHHcCC-
Confidence            56678999999876  33555655554434455555544 43333332 234567899999999999999887732221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      .-.++++..|++..+|.+..+...
T Consensus       197 ~id~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        197 KYEDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            223567788999999977544433

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=96.21  E-value=0.052  Score=62.88  Aligned_cols=144  Identities=11%  Similarity=0.087  Sum_probs=82.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||+||+++++.....  ...++|++..      .+...+...+...        ....+....  ...-+|++||+
T Consensus       150 ~G~GKTHLl~Ai~~~l~~~--~~~v~yi~~~------~f~~~~~~~l~~~--------~~~~f~~~~--~~~dvLiIDDi  211 (445)
T PRK12422        150 EGSGKTHLMQAAVHALRES--GGKILYVRSE------LFTEHLVSAIRSG--------EMQRFRQFY--RNVDALFIEDI  211 (445)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCCEEEeeHH------HHHHHHHHHHhcc--------hHHHHHHHc--ccCCEEEEcch
Confidence            6999999999999988643  3457777642      3334444443211        112233333  34458888998


Q ss_pred             CCccc----chhhccCCCC-CCCCcEEEEecCCh-hh--------hhhcCCcceEEcCCCCHHHHHHHHHHHhCCCCCCh
Q 000869           82 WKRVD----LETVGIPFGD-DHRGCKLLLTARDR-TV--------LFSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~~----~~~l~~~~~~-~~~~~~vliTtR~~-~~--------~~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +....    .+.+...+-. ...|..||+||... ..        ..++..+..+++.+++.++..+++.+.+.... ..
T Consensus       212 q~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~~~~~-~~  290 (445)
T PRK12422        212 EVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKAEALS-IR  290 (445)
T ss_pred             hhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHHHHcC-CC
Confidence            76421    1111111100 01345688888542 11        11334457899999999999999999883221 11


Q ss_pred             hhHHHHHHHHHHcCCCc
Q 000869          148 ELKSTATEVAKACKGLP  164 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~P  164 (1247)
                      -.+++..-|++...+.-
T Consensus       291 l~~evl~~la~~~~~di  307 (445)
T PRK12422        291 IEETALDFLIEALSSNV  307 (445)
T ss_pred             CCHHHHHHHHHhcCCCH
Confidence            22355566777776543

>PRK04132 replication factor C small subunit; Provisional

Probab=96.16  E-value=0.087  Score=65.04  Aligned_cols=150  Identities=11%  Similarity=0.052  Sum_probs=91.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+||||+|.+++++.-.++.-..++-+++++......+. ++.+.+....+              +...+.-++|+|++
T Consensus       575 h~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~IR-~iIk~~a~~~~--------------~~~~~~KVvIIDEa  639 (846)
T PRK04132        575 TVLHNTTAALALARELFGENWRHNFLELNASDERGINVIR-EKVKEFARTKP--------------IGGASFKIIFLDEA  639 (846)
T ss_pred             CcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHHH-HHHHHHHhcCC--------------cCCCCCEEEEEECc
Confidence            4789999999999986432211347788888765555333 33222211000              00124579999999


Q ss_pred             CCc--ccchhhccCCCCCCCCcEEEEecCCh-hhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHHH
Q 000869           82 WKR--VDLETVGIPFGDDHRGCKLLLTARDR-TVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVA  157 (1247)
Q Consensus        82 ~~~--~~~~~l~~~~~~~~~~~~vliTtR~~-~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~  157 (1247)
                      +..  +..+++...+......+++|.+|.+. .+... ...+..+++.+++.++-.+.+...+..... .-..+....|+
T Consensus       640 D~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Egi-~i~~e~L~~Ia  718 (846)
T PRK04132        640 DALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL-ELTEEGLQAIL  718 (846)
T ss_pred             ccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcCC-CCCHHHHHHHH
Confidence            986  34555544444333455555555444 33222 244679999999999998888877632111 11246788999


Q ss_pred             HHcCCCchHH
Q 000869          158 KACKGLPIAL  167 (1247)
Q Consensus       158 ~~~~g~Plai  167 (1247)
                      +.++|-+...
T Consensus       719 ~~s~GDlR~A  728 (846)
T PRK04132        719 YIAEGDMRRA  728 (846)
T ss_pred             HHcCCCHHHH
Confidence            9999987433

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.09  E-value=0.00049  Score=69.55  Aligned_cols=78  Identities=17%  Similarity=0.180  Sum_probs=51.1

Q ss_pred             CCCccEEEccCCCCccccccchhhhcCCCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc---ccccCCCCCc
Q 000869          343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV---AIIGKLKNLE  419 (1247)
Q Consensus       343 ~~~L~~L~l~~n~~~~~~~l~~~~~~~l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~---~~~~~L~~L~  419 (1247)
                      +.+.+.|++-|+.+.     .-++..+|+.|.||.||-|.|+.+- .+..+++|+.|.|..|.|.++   .-+.+|++||
T Consensus        18 l~~vkKLNcwg~~L~-----DIsic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr   91 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLD-----DISICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLR   91 (388)
T ss_pred             HHHhhhhcccCCCcc-----HHHHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhh
Confidence            345556666666655     1245677888888888888877763 366777777777777776655   3455666666


Q ss_pred             EEEccCC
Q 000869          420 ILSFSGS  426 (1247)
Q Consensus       420 ~L~L~~~  426 (1247)
                      .|=|..|
T Consensus        92 ~LWL~EN   98 (388)
T KOG2123|consen   92 TLWLDEN   98 (388)
T ss_pred             hHhhccC
Confidence            6666555

>PRK06620 hypothetical protein; Validated

Probab=96.05  E-value=0.026  Score=58.42  Aligned_cols=95  Identities=13%  Similarity=-0.032  Sum_probs=57.7

Q ss_pred             eEEEEEeCCCCcccch--hhccCCCCCCCCcEEEEecCChhhh-------hhcCCcceEEcCCCCHHHHHHHHHHHhCCC
Q 000869           73 KILIILDNIWKRVDLE--TVGIPFGDDHRGCKLLLTARDRTVL-------FSMGSEKNFLVDILKEEEAWRLFKLMAGDD  143 (1247)
Q Consensus        73 ~~LlvlDd~~~~~~~~--~l~~~~~~~~~~~~vliTtR~~~~~-------~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~  143 (1247)
                      .-++++||++..++.+  .+...+.  ..|..+|+|++.....       .++....+++++++++++-.+++.+.+.+.
T Consensus        86 ~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~  163 (214)
T PRK06620         86 YNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS  163 (214)
T ss_pred             CCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc
Confidence            3578889998543211  1111111  3466899988754431       134455689999999999888888887421


Q ss_pred             CCChhhHHHHHHHHHHcCCCchHHHHH
Q 000869          144 VENRELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       144 ~~~~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      . ..-.++++.-|++.+.|---.+..+
T Consensus       164 ~-l~l~~ev~~~L~~~~~~d~r~l~~~  189 (214)
T PRK06620        164 S-VTISRQIIDFLLVNLPREYSKIIEI  189 (214)
T ss_pred             C-CCCCHHHHHHHHHHccCCHHHHHHH
Confidence            1 1223467777888887765444443

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.05  E-value=0.0032  Score=64.05  Aligned_cols=58  Identities=24%  Similarity=0.303  Sum_probs=31.2

Q ss_pred             cCCCCcEEEccCcCCCCc---ccccCCCCCcEEEccCCCCCcCch----hhcCCCCCcEEeccCC
Q 000869          392 HLLNLQTLCLDQCILGDV---AIIGKLKNLEILSFSGSGIVKLPE----ELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       392 ~l~~L~~L~L~~~~l~~~---~~~~~L~~L~~L~L~~~~i~~lp~----~i~~L~~L~~L~L~~~  449 (1247)
                      .+++|++|++++|+++.+   ....++.+|..||+..|..+.+-+    -|.-+++|.+|+-...
T Consensus        89 ~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen   89 KAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             hCCceeEEeecCCccccccccchhhhhcchhhhhcccCCccccccHHHHHHHHhhhhcccccccc
Confidence            445555555555554433   334455566666666665554421    2455666776654443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.95  E-value=0.096  Score=60.03  Aligned_cols=96  Identities=7%  Similarity=0.037  Sum_probs=58.5

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEec-CChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTA-RDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTt-R~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  .++.+...+......+.+|++| +...+.. .......++++++++++....+...+..... 
T Consensus       107 ~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~-  185 (367)
T PRK14970        107 GKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTILSRCQIFDFKRITIKDIKEHLAGIAVKEGI-  185 (367)
T ss_pred             CCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHHhcceeEecCCccHHHHHHHHHHHHHHcCC-
Confidence            456689999997652  3445533333323344455444 4333332 1234568999999999999999887732221 


Q ss_pred             hhhHHHHHHHHHHcCCCchHH
Q 000869          147 RELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai  167 (1247)
                      .-..+++..+++.++|-+-.+
T Consensus       186 ~i~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        186 KFEDDALHIIAQKADGALRDA  206 (367)
T ss_pred             CCCHHHHHHHHHhCCCCHHHH
Confidence            123467888899999866433

>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=95.94  E-value=0.033  Score=56.24  Aligned_cols=67  Identities=18%  Similarity=0.131  Sum_probs=42.3

Q ss_pred             EEEecCChhhhhhcCC--cceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHH
Q 000869          103 LLLTARDRTVLFSMGS--EKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       103 vliTtR~~~~~~~~~~--~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                      |=-|||.-.+...+..  ....+++..+.+|-.+++.+.+.--. ..-..+.+.+|++++.|-|-...-+
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~-i~i~~~~~~~Ia~rsrGtPRiAnrl  221 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILN-IEIDEDAAEEIARRSRGTPRIANRL  221 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT--EE-HHHHHHHHHCTTTSHHHHHHH
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhC-CCcCHHHHHHHHHhcCCChHHHHHH
Confidence            4458887665543332  34568999999999999998884222 2234578999999999999544433

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.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.92  E-value=0.00042  Score=70.02  Aligned_cols=105  Identities=30%  Similarity=0.383  Sum_probs=63.9

Q ss_pred             CCCCcEEEccCcCCCCcccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccCh-hhhcCCCCCCEEEe
Q 000869          393 LLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAP-NVISSLIRLEELYM  471 (1247)
Q Consensus       393 l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~-~~~~~L~~L~~L~l  471 (1247)
                      +.+.+-|+..||.+.+++.+.+++.|++|.|+-|.|+.+- .+..+++|+.|+|..| .+..+.. .-+.++++|+.|.+
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~-pl~rCtrLkElYLRkN-~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLA-PLQRCTRLKELYLRKN-CIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccch-hHHHHHHHHHHHHHhc-ccccHHHHHHHhcCchhhhHhh
Confidence            4456667777777777777777777777777777777663 3667777777777776 5555421 11456667777776


Q ss_pred             ecCccccccCCCCcccccccccccCCCCCCcEEE
Q 000869          472 SNCFVEWEDEGPNSETINSRLDELMHLPRLTTLE  505 (1247)
Q Consensus       472 ~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  505 (1247)
                      ..|...    +..+.  .-.-..+.-|++|+.|+
T Consensus        96 ~ENPCc----~~ag~--nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   96 DENPCC----GEAGQ--NYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             ccCCcc----cccch--hHHHHHHHHcccchhcc
Confidence            665432    00000  11123455666676665

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=95.90  E-value=0.073  Score=64.62  Aligned_cols=111  Identities=12%  Similarity=0.027  Sum_probs=59.0

Q ss_pred             HHHHHHHHhcCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEE--ecCChhhhh-h-cCCcceEEcCCCCHHHHHH
Q 000869           61 ASRLHEQLKREEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLL--TARDRTVLF-S-MGSEKNFLVDILKEEEAWR  134 (1247)
Q Consensus        61 ~~~~~~~l~~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vli--TtR~~~~~~-~-~~~~~~~~l~~l~~~ea~~  134 (1247)
                      +..+.+.+. .+++.++-|+.|..  ..|+.+...+....+...|++  ||++..... . ......+.+.+++.+|.++
T Consensus       282 Q~~Ll~~Le-~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~  360 (615)
T TIGR02903       282 QNKLLKVLE-DKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIAL  360 (615)
T ss_pred             HHHHHHHHh-hCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHH
Confidence            344555554 56666665544432  234544444444444444555  666554222 1 1234577889999999999


Q ss_pred             HHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHHHHH
Q 000869          135 LFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARA  173 (1247)
Q Consensus       135 l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~  173 (1247)
                      ++.+.+...... -..++...|.+....-+.|+..++..
T Consensus       361 Il~~~a~~~~v~-ls~eal~~L~~ys~~gRraln~L~~~  398 (615)
T TIGR02903       361 IVLNAAEKINVH-LAAGVEELIARYTIEGRKAVNILADV  398 (615)
T ss_pred             HHHHHHHHcCCC-CCHHHHHHHHHCCCcHHHHHHHHHHH
Confidence            999988432111 12344445555444445555555433

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.

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=95.90  E-value=0.11  Score=57.05  Aligned_cols=92  Identities=14%  Similarity=0.072  Sum_probs=58.0

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCC-hhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARD-RTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~-~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  .-.++.-.+..-..++.+|++|.+ ..+.. .......+.+.+++.+++.+.+.+. +.    
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrSRCq~i~~~~~~~~~~~~~L~~~-~~----  186 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRSRCQRLEFKLPPAHEALAWLLAQ-GV----  186 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHhhheEeeCCCcCHHHHHHHHHHc-CC----
Confidence            567899999998762  223332223333345555555544 44433 2345778999999999999888754 21    


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                        ..+.+..++..++|.|+....
T Consensus       187 --~~~~a~~~~~l~~G~p~~A~~  207 (319)
T PRK08769        187 --SERAAQEALDAARGHPGLAAQ  207 (319)
T ss_pred             --ChHHHHHHHHHcCCCHHHHHH
Confidence              123366789999999975543

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=95.89  E-value=0.059  Score=61.72  Aligned_cols=141  Identities=19%  Similarity=0.238  Sum_probs=76.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+++++.....     .+.+..+      .+....   .+      ........+++......+.+|+||++
T Consensus       174 pGtGKT~lAkaia~~~~~~-----~i~v~~~------~l~~~~---~g------~~~~~i~~~f~~a~~~~p~IlfiDEi  233 (389)
T PRK03992        174 PGTGKTLLAKAVAHETNAT-----FIRVVGS------ELVQKF---IG------EGARLVRELFELAREKAPSIIFIDEI  233 (389)
T ss_pred             CCCChHHHHHHHHHHhCCC-----EEEeehH------HHhHhh---cc------chHHHHHHHHHHHHhcCCeEEEEech
Confidence            7999999999999876421     1222211      111110   11      11223344444444457789999999


Q ss_pred             CCcc------------c----chhhccCCC--CCCCCcEEEEecCChhhhh-hc----CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRV------------D----LETVGIPFG--DDHRGCKLLLTARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~------------~----~~~l~~~~~--~~~~~~~vliTtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +...            .    +..+...+.  ....+.+||.||....... .+    .....+.++..+.++..++|+.
T Consensus       234 D~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~  313 (389)
T PRK03992        234 DAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKI  313 (389)
T ss_pred             hhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHH
Confidence            8641            0    111111111  1123566777876544322 11    1245789999999999999998


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCCc
Q 000869          139 MAGDDVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      ++.......+  .....+++.+.|.-
T Consensus       314 ~~~~~~~~~~--~~~~~la~~t~g~s  337 (389)
T PRK03992        314 HTRKMNLADD--VDLEELAELTEGAS  337 (389)
T ss_pred             HhccCCCCCc--CCHHHHHHHcCCCC
Confidence            8843222111  12456677776643

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=95.84  E-value=0.022  Score=55.16  Aligned_cols=82  Identities=21%  Similarity=0.165  Sum_probs=48.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+||||+|+.++......  ...+++++.+........... ...................+..........++++|++
T Consensus        11 ~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~viiiDei   87 (148)
T smart00382       11 PGSGKTTLARALARELGPP--GGGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLKPDVLILDEI   87 (148)
T ss_pred             CCCcHHHHHHHHHhccCCC--CCCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcCCCEEEEECC
Confidence            7999999999999887643  235777776654433322222 1111222222233444445555554334599999999


Q ss_pred             CCccc
Q 000869           82 WKRVD   86 (1247)
Q Consensus        82 ~~~~~   86 (1247)
                      +....
T Consensus        88 ~~~~~   92 (148)
T smart00382       88 TSLLD   92 (148)
T ss_pred             cccCC
Confidence            87643

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.

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

Probab=95.79  E-value=0.075  Score=59.39  Aligned_cols=135  Identities=23%  Similarity=0.337  Sum_probs=80.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh---cCCeEEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK---REEKILIIL   78 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~---~~~~~Llvl   78 (1247)
                      +|+|||+||..++..    ..|+.|=-++..+-.             |.     .+.....++...+.   +..-..||+
T Consensus       547 ~~sGKTaLAA~iA~~----S~FPFvKiiSpe~mi-------------G~-----sEsaKc~~i~k~F~DAYkS~lsiivv  604 (744)
T KOG0741|consen  547 PGSGKTALAAKIALS----SDFPFVKIISPEDMI-------------GL-----SESAKCAHIKKIFEDAYKSPLSIIVV  604 (744)
T ss_pred             CCCChHHHHHHHHhh----cCCCeEEEeChHHcc-------------Cc-----cHHHHHHHHHHHHHHhhcCcceEEEE
Confidence            799999999999976    338766544332211             11     12233333333332   246678999


Q ss_pred             eCCCCcccchhhccCCCC---------------CCCCcEEEEecCChhhhhhcCC----cceEEcCCCCH-HHHHHHHHH
Q 000869           79 DNIWKRVDLETVGIPFGD---------------DHRGCKLLLTARDRTVLFSMGS----EKNFLVDILKE-EEAWRLFKL  138 (1247)
Q Consensus        79 Dd~~~~~~~~~l~~~~~~---------------~~~~~~vliTtR~~~~~~~~~~----~~~~~l~~l~~-~ea~~l~~~  138 (1247)
                      ||++..-+|-.+++.+..               .++.--|+-||..+.+...++-    ...+.++.++. ++..+.+..
T Consensus       605 DdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~~~~~~vl~~  684 (744)
T KOG0741|consen  605 DDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTGEQLLEVLEE  684 (744)
T ss_pred             cchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCchHHHHHHHHH
Confidence            999988887766555443               2333335558888888776543    45788999887 677666665


Q ss_pred             HhCCCCCChhhHHHHHHHHHHc
Q 000869          139 MAGDDVENRELKSTATEVAKAC  160 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~  160 (1247)
                      .--  ....+.+..+.+...++
T Consensus       685 ~n~--fsd~~~~~~~~~~~~~~  704 (744)
T KOG0741|consen  685 LNI--FSDDEVRAIAEQLLSKK  704 (744)
T ss_pred             ccC--CCcchhHHHHHHHhccc
Confidence            541  11223344555555554

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=95.71  E-value=0.047  Score=61.21  Aligned_cols=115  Identities=17%  Similarity=0.243  Sum_probs=62.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHH-hcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQL-KREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l-~~~~~~LlvlDd   80 (1247)
                      +|+|||++|+++++...     ..++.++.+. .... ..+..+..                ..... ..+.+-++|+|+
T Consensus        52 ~G~GKT~la~~l~~~~~-----~~~~~i~~~~-~~~~-~i~~~l~~----------------~~~~~~~~~~~~vliiDe  108 (316)
T PHA02544         52 PGTGKTTVAKALCNEVG-----AEVLFVNGSD-CRID-FVRNRLTR----------------FASTVSLTGGGKVIIIDE  108 (316)
T ss_pred             CCCCHHHHHHHHHHHhC-----ccceEeccCc-ccHH-HHHHHHHH----------------HHHhhcccCCCeEEEEEC
Confidence            69999999999998753     1344555544 2221 11111111                00100 014566899999


Q ss_pred             CCCc---ccchhhccCCCCCCCCcEEEEecCChhhhh--hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           81 IWKR---VDLETVGIPFGDDHRGCKLLLTARDRTVLF--SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        81 ~~~~---~~~~~l~~~~~~~~~~~~vliTtR~~~~~~--~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      ++..   +..+.+...+.....++++|+||.......  .......+.++..+.++..+++...
T Consensus       109 ~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~~~  172 (316)
T PHA02544        109 FDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQM  172 (316)
T ss_pred             cccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHHHH
Confidence            9865   122233222333345778888886543221  1133457777788888877666543

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=95.69  E-value=0.29  Score=53.64  Aligned_cols=91  Identities=12%  Similarity=0.127  Sum_probs=57.4

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecC-Chhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTAR-DRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR-~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  ...++.-.+..-..++.+|.+|. ...+.. -......+.+.+++.+++.+.+.+...+    
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~~~~~~~~~~~~~~L~~~~~~----  182 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQWVVTPPSTAQAMQWLKGQGIT----  182 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeEeCCCCCHHHHHHHHHHcCCc----
Confidence            567788999998762  23333322333334455555544 444443 3356779999999999999988764211    


Q ss_pred             hhhHHHHHHHHHHcCCCchHHHHH
Q 000869          147 RELKSTATEVAKACKGLPIALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai~~~  170 (1247)
                           .+..+++.++|.|+.....
T Consensus       183 -----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        183 -----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             -----hHHHHHHHcCCCHHHHHHH
Confidence                 1346788999999765443

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=95.64  E-value=0.18  Score=60.56  Aligned_cols=96  Identities=10%  Similarity=0.076  Sum_probs=59.7

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      ++.-++|+|+++..  ..+.++...+........ |+.||....+... ......++..+++.++..+.+...+......
T Consensus       118 ~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~  197 (559)
T PRK05563        118 AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATILSRCQRFDFKRISVEDIVERLKYILDKEGIE  197 (559)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCC
Confidence            56778899999865  334455433333223333 4445555444332 2346688899999999999998877322211


Q ss_pred             hhhHHHHHHHHHHcCCCchHH
Q 000869          147 RELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Plai  167 (1247)
                       -..+.+..|++.++|.+..+
T Consensus       198 -i~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        198 -YEDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             -CCHHHHHHHHHHcCCCHHHH
Confidence             12466788888998877543

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

Probab=95.62  E-value=0.018  Score=64.93  Aligned_cols=81  Identities=22%  Similarity=0.300  Sum_probs=52.4

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh-c-CCeEEEEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK-R-EEKILIIL   78 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~-~-~~~~Llvl   78 (1247)
                      ++|+|||++|+++++.......|+.+.|+.+....+..+++..+... +....  -......++..+.. . ++++++|+
T Consensus       202 ppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~vgy~--~~~G~f~~~~~~A~~~p~~~~vliI  278 (459)
T PRK11331        202 PPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GVGFR--RKDGIFYNFCQQAKEQPEKKYVFII  278 (459)
T ss_pred             CCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-CCCeE--ecCchHHHHHHHHHhcccCCcEEEE
Confidence            58999999999999988765668899999999888877766543211 11100  01111222222222 1 47899999


Q ss_pred             eCCCCc
Q 000869           79 DNIWKR   84 (1247)
Q Consensus        79 Dd~~~~   84 (1247)
                      |+++..
T Consensus       279 DEINRa  284 (459)
T PRK11331        279 DEINRA  284 (459)
T ss_pred             ehhhcc
Confidence            999765

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

Probab=95.60  E-value=0.04  Score=63.09  Aligned_cols=141  Identities=18%  Similarity=0.197  Sum_probs=75.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|+++++.....  |   +.+..+.      +...   .++      .....+..+++....+.+++++||++
T Consensus       226 PGTGKT~LAraIA~el~~~--f---i~V~~se------L~~k---~~G------e~~~~vr~lF~~A~~~~P~ILfIDEI  285 (438)
T PTZ00361        226 PGTGKTLLAKAVANETSAT--F---LRVVGSE------LIQK---YLG------DGPKLVRELFRVAEENAPSIVFIDEI  285 (438)
T ss_pred             CCCCHHHHHHHHHHhhCCC--E---EEEecch------hhhh---hcc------hHHHHHHHHHHHHHhCCCcEEeHHHH
Confidence            7999999999999976532  3   2222111      1111   011      11222344444444467889999998


Q ss_pred             CCccc----------------chhhccCCC--CCCCCcEEEEecCChhhhhh-c----CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRVD----------------LETVGIPFG--DDHRGCKLLLTARDRTVLFS-M----GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~~----------------~~~l~~~~~--~~~~~~~vliTtR~~~~~~~-~----~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +....                +-.+...+.  ....+.+||+||........ +    .....+.++..+.++..++|..
T Consensus       286 D~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~  365 (438)
T PTZ00361        286 DAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEI  365 (438)
T ss_pred             HHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHH
Confidence            64310                001111110  01235678888876655442 1    1245788999999999999998


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCCc
Q 000869          139 MAGDDVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      ++.......+  .....++..+.|.-
T Consensus       366 ~~~k~~l~~d--vdl~~la~~t~g~s  389 (438)
T PTZ00361        366 HTSKMTLAED--VDLEEFIMAKDELS  389 (438)
T ss_pred             HHhcCCCCcC--cCHHHHHHhcCCCC
Confidence            8743221111  12345555665543

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=95.57  E-value=0.18  Score=55.40  Aligned_cols=150  Identities=11%  Similarity=0.165  Sum_probs=82.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCe--------EEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh----
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDR--------VVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK----   69 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~--------~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----   69 (1247)
                      .|+||+++|++++...-..+....        +-++..+...|...+        ..........+.+.++.+.+.    
T Consensus        33 ~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i--------~p~~~~~I~id~iR~l~~~~~~~~~  104 (325)
T PRK06871         33 SGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHIL--------EPIDNKDIGVDQVREINEKVSQHAQ  104 (325)
T ss_pred             CCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEE--------ccccCCCCCHHHHHHHHHHHhhccc
Confidence            699999999999988865321110        001111111111100        000000112334444444433    


Q ss_pred             cCCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCCh-hhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCC
Q 000869           70 REEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVE  145 (1247)
Q Consensus        70 ~~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~-~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~  145 (1247)
                      .+++-++|+|+++...  ...++.-.+-.-..++.+|++|.++ .+... ......+.+.+++.+++.+.+.+..+..  
T Consensus       105 ~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~~~~~~~~~~~~~~L~~~~~~~--  182 (325)
T PRK06871        105 QGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTWLIHPPEEQQALDWLQAQSSAE--  182 (325)
T ss_pred             cCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEEeCCCCCHHHHHHHHHHHhccC--
Confidence            2677788899998762  2333333333333455555555544 44332 3457799999999999999998775321  


Q ss_pred             ChhhHHHHHHHHHHcCCCch
Q 000869          146 NRELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       146 ~~~~~~~~~~i~~~~~g~Pl  165 (1247)
                          ...+...++.++|.|.
T Consensus       183 ----~~~~~~~~~l~~g~p~  198 (325)
T PRK06871        183 ----ISEILTALRINYGRPL  198 (325)
T ss_pred             ----hHHHHHHHHHcCCCHH
Confidence                1235566888999995

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

Probab=95.56  E-value=0.039  Score=57.52  Aligned_cols=150  Identities=19%  Similarity=0.153  Sum_probs=86.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCe-EEEEEcCCccCHH---HHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDR-VVFSEVSQTIDIK---KIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILII   77 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~-~~w~~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Llv   77 (1247)
                      +|.|||+-|++++++.-..+-|+. +.-.+++......   .-.+..++............           ...--.+|
T Consensus        66 pGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~Kik~fakl~~~~~~~~~~~-----------~~~fKiiI  134 (346)
T KOG0989|consen   66 PGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVREKIKNFAKLTVLLKRSDGYP-----------CPPFKIII  134 (346)
T ss_pred             CCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhhhhcCHHHHhhccccccCCC-----------CCcceEEE
Confidence            799999999999999876555544 4444554433222   11111111111110000000           01225788


Q ss_pred             EeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHHH
Q 000869           78 LDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTA  153 (1247)
Q Consensus        78 lDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~  153 (1247)
                      ||+++..  +.|.++..........++ |+||+--..+.. -......|..++|.+++..+-++..+.++...- ..++.
T Consensus       135 lDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~-d~~al  213 (346)
T KOG0989|consen  135 LDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKEGVDI-DDDAL  213 (346)
T ss_pred             EechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcchHHHHHHHHHHHHHhCCCC-CHHHH
Confidence            8999876  668777655555444555 445543222222 223456888999999999999988884333222 34677


Q ss_pred             HHHHHHcCCC
Q 000869          154 TEVAKACKGL  163 (1247)
Q Consensus       154 ~~i~~~~~g~  163 (1247)
                      ..|++.++|-
T Consensus       214 ~~I~~~S~Gd  223 (346)
T KOG0989|consen  214 KLIAKISDGD  223 (346)
T ss_pred             HHHHHHcCCc
Confidence            8889888874

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.48  E-value=0.2  Score=58.55  Aligned_cols=143  Identities=17%  Similarity=0.177  Sum_probs=78.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||.+|+++++.....     .+-++.+...      .   ..+|      .....+.++++......+++|++|++
T Consensus       268 pGTGKTllAkaiA~e~~~~-----~~~l~~~~l~------~---~~vG------ese~~l~~~f~~A~~~~P~IL~IDEI  327 (489)
T CHL00195        268 QGTGKSLTAKAIANDWQLP-----LLRLDVGKLF------G---GIVG------ESESRMRQMIRIAEALSPCILWIDEI  327 (489)
T ss_pred             CCCcHHHHHHHHHHHhCCC-----EEEEEhHHhc------c---cccC------hHHHHHHHHHHHHHhcCCcEEEehhh
Confidence            7999999999999875421     2223322110      0   0011      12234445555555568999999999


Q ss_pred             CCccc--------------chhhccCCCCCCCCcEEEEecCChhhhh----hc-CCcceEEcCCCCHHHHHHHHHHHhCC
Q 000869           82 WKRVD--------------LETVGIPFGDDHRGCKLLLTARDRTVLF----SM-GSEKNFLVDILKEEEAWRLFKLMAGD  142 (1247)
Q Consensus        82 ~~~~~--------------~~~l~~~~~~~~~~~~vliTtR~~~~~~----~~-~~~~~~~l~~l~~~ea~~l~~~~~~~  142 (1247)
                      |....              ...+...+.....+-.||.||.+.....    +. .....+.++..+.++-.++|..+...
T Consensus       328 D~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~  407 (489)
T CHL00195        328 DKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQK  407 (489)
T ss_pred             hhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhh
Confidence            85310              0111111112223444666776554322    11 23467889999999999999998843


Q ss_pred             CCCChhhHHHHHHHHHHcCCCc
Q 000869          143 DVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       143 ~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      .............+++.+.|.-
T Consensus       408 ~~~~~~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        408 FRPKSWKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             cCCCcccccCHHHHHhhcCCCC
Confidence            2221111223566777776654

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

Probab=95.44  E-value=0.21  Score=53.98  Aligned_cols=134  Identities=17%  Similarity=0.180  Sum_probs=83.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchH----HHH----HHHHH--HHh-c
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETES----SRA----SRLHE--QLK-R   70 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~----~~~----~~~~~--~l~-~   70 (1247)
                      +|.|||.+.+++.+...     ...+|+++-+-++.+.+..+|+.+++..+.+....    +..    ..+.+  ... .
T Consensus        39 sgTGKT~~~r~~l~~~n-----~~~vw~n~~ecft~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~  113 (438)
T KOG2543|consen   39 SGTGKTYLVRQLLRKLN-----LENVWLNCVECFTYAILLEKILNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNR  113 (438)
T ss_pred             CCCchhHHHHHHHhhcC-----CcceeeehHHhccHHHHHHHHHHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhcc
Confidence            69999999999998763     35689999999999999999999995222211111    112    22222  111 2


Q ss_pred             CCeEEEEEeCCCCcccchhhccCC----CC-CCCCcEEEEecCChhhhh---hcCCcc--eEEcCCCCHHHHHHHHHHHh
Q 000869           71 EEKILIILDNIWKRVDLETVGIPF----GD-DHRGCKLLLTARDRTVLF---SMGSEK--NFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~~~~~l~~~~----~~-~~~~~~vliTtR~~~~~~---~~~~~~--~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      ++.++||+||++...+.++...+.    .. .....-+|+++-......   .+++..  ++..+..+.+|..+++.+.-
T Consensus       114 d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~~  193 (438)
T KOG2543|consen  114 DQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRDN  193 (438)
T ss_pred             CceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcCC
Confidence            468999999999876665431110    00 111233555554433222   134433  55678899999998886655

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

Probab=95.28  E-value=0.29  Score=52.59  Aligned_cols=164  Identities=20%  Similarity=0.247  Sum_probs=99.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-||++||++....  |     +.+...    ++.++..   |      +-...+.++++..+.+.++.|.+|.+
T Consensus       194 PGTGKTLLAkAVA~~T~At--F-----IrvvgS----ElVqKYi---G------EGaRlVRelF~lArekaPsIIFiDEI  253 (406)
T COG1222         194 PGTGKTLLAKAVANQTDAT--F-----IRVVGS----ELVQKYI---G------EGARLVRELFELAREKAPSIIFIDEI  253 (406)
T ss_pred             CCCcHHHHHHHHHhccCce--E-----EEeccH----HHHHHHh---c------cchHHHHHHHHHHhhcCCeEEEEech
Confidence            7999999999999987654  3     433221    1222221   1      12345566777666678999999999


Q ss_pred             CCccc-----------------chhh--ccCCCCCCCCcEEEEecCChhhhh----hcC-CcceEEcCCCCHHHHHHHHH
Q 000869           82 WKRVD-----------------LETV--GIPFGDDHRGCKLLLTARDRTVLF----SMG-SEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        82 ~~~~~-----------------~~~l--~~~~~~~~~~~~vliTtR~~~~~~----~~~-~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      |....                 ++-+  ..-|.+ ...-|||..|-..++..    +.+ -...++++.-+.+.-.++|+
T Consensus       254 DAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~-~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~  332 (406)
T COG1222         254 DAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDP-RGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILK  332 (406)
T ss_pred             hhhhcccccCCCCchHHHHHHHHHHHHhccCCCC-CCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHH
Confidence            75410                 0111  112222 24678999887776654    212 25688888888888889999


Q ss_pred             HHhCCCCCChhhHHHHHHHHHHcCCCc----hHHHHHHHHHhcC------ChhHHHHHHHH
Q 000869          138 LMAGDDVENRELKSTATEVAKACKGLP----IALTTIARALRNK------SMPQWKTTLQQ  188 (1247)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~i~~~~~g~P----lai~~~a~~l~~~------~~~~w~~~l~~  188 (1247)
                      -++..-+...+  -....+++.+.|.-    .|+++=|++++-+      +.+.+....++
T Consensus       333 IHtrkM~l~~d--vd~e~la~~~~g~sGAdlkaictEAGm~AiR~~R~~Vt~~DF~~Av~K  391 (406)
T COG1222         333 IHTRKMNLADD--VDLELLARLTEGFSGADLKAICTEAGMFAIRERRDEVTMEDFLKAVEK  391 (406)
T ss_pred             HHhhhccCccC--cCHHHHHHhcCCCchHHHHHHHHHHhHHHHHhccCeecHHHHHHHHHH
Confidence            88842221111  12355677777664    6777778887522      45555544444

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=95.24  E-value=0.57  Score=52.63  Aligned_cols=122  Identities=17%  Similarity=0.206  Sum_probs=70.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|.|||-|++++++.......=..+++++.      +.....++..+..        ...+.+++..   .-=++++||+
T Consensus       122 ~GlGKTHLl~Aign~~~~~~~~a~v~y~~s------e~f~~~~v~a~~~--------~~~~~Fk~~y---~~dlllIDDi  184 (408)
T COG0593         122 VGLGKTHLLQAIGNEALANGPNARVVYLTS------EDFTNDFVKALRD--------NEMEKFKEKY---SLDLLLIDDI  184 (408)
T ss_pred             CCCCHHHHHHHHHHHHHhhCCCceEEeccH------HHHHHHHHHHHHh--------hhHHHHHHhh---ccCeeeechH
Confidence            489999999999999875421124555542      2333333333211        2223333322   2237888998


Q ss_pred             CCccc---c-hhhccCCCC-CCCCcEEEEecCChhh---------hhhcCCcceEEcCCCCHHHHHHHHHHHh
Q 000869           82 WKRVD---L-ETVGIPFGD-DHRGCKLLLTARDRTV---------LFSMGSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        82 ~~~~~---~-~~l~~~~~~-~~~~~~vliTtR~~~~---------~~~~~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      +-...   + +.+...+-. ...|-+||+|++...-         ..++..+-.+++.+.+.+...+++.+.+
T Consensus       185 q~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka  257 (408)
T COG0593         185 QFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILRKKA  257 (408)
T ss_pred             hHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHHHHH
Confidence            75421   1 111111111 1234479999855433         2244566799999999999999999987

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=95.21  E-value=0.16  Score=61.17  Aligned_cols=99  Identities=12%  Similarity=0.137  Sum_probs=60.8

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcE-EEEecCChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCC
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCK-LLLTARDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~-vliTtR~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +++-++|+|+++...  ..+++...+..-...+. |++||....+... ......+++..++.++....+...+......
T Consensus       118 ~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~  197 (576)
T PRK14965        118 SRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITILSRCQRFDFRRIPLQKIVDRLRYIADQEGIS  197 (576)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCC
Confidence            456688999998652  34444433333223444 4456655555442 2346688899999999998888877322211


Q ss_pred             hhhHHHHHHHHHHcCCCc-hHHHHH
Q 000869          147 RELKSTATEVAKACKGLP-IALTTI  170 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~P-lai~~~  170 (1247)
                       -..+....|++.++|.. .|+..+
T Consensus       198 -i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        198 -ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             -CCHHHHHHHHHHcCCCHHHHHHHH
Confidence             23467788899999865 444443

>CHL00176 ftsH cell division protein; Validated

Probab=95.20  E-value=0.24  Score=60.02  Aligned_cols=139  Identities=17%  Similarity=0.235  Sum_probs=78.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|++++......     .+.++.++      +....   .+      .....+..+++......+++|++|++
T Consensus       225 pGTGKT~LAralA~e~~~p-----~i~is~s~------f~~~~---~g------~~~~~vr~lF~~A~~~~P~ILfIDEI  284 (638)
T CHL00176        225 PGTGKTLLAKAIAGEAEVP-----FFSISGSE------FVEMF---VG------VGAARVRDLFKKAKENSPCIVFIDEI  284 (638)
T ss_pred             CCCCHHHHHHHHHHHhCCC-----eeeccHHH------HHHHh---hh------hhHHHHHHHHHHHhcCCCcEEEEecc
Confidence            7999999999999875321     22222221      11100   11      11233445555555578899999999


Q ss_pred             CCcc----------------cchhhccCCC--CCCCCcEEEEecCChhhhh----hc-CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRV----------------DLETVGIPFG--DDHRGCKLLLTARDRTVLF----SM-GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~----------------~~~~l~~~~~--~~~~~~~vliTtR~~~~~~----~~-~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +...                .+..+...+.  ....+-.||.||.......    +. .....+.++..+.++-.++++.
T Consensus       285 D~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~  364 (638)
T CHL00176        285 DAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKV  364 (638)
T ss_pred             hhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHH
Confidence            7531                0112211111  1223556777776654322    11 2246788999999999999999


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCC
Q 000869          139 MAGDDVENRELKSTATEVAKACKG  162 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g  162 (1247)
                      ++......  .......+++.+.|
T Consensus       365 ~l~~~~~~--~d~~l~~lA~~t~G  386 (638)
T CHL00176        365 HARNKKLS--PDVSLELIARRTPG  386 (638)
T ss_pred             HHhhcccc--hhHHHHHHHhcCCC
Confidence            98542211  22345778888777

>TIGR03689 pup_AAA proteasome ATPase

Probab=95.16  E-value=0.21  Score=58.22  Aligned_cols=128  Identities=13%  Similarity=0.183  Sum_probs=69.6

Q ss_pred             CCccHHHHHHHHHHHhhhcc---CCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHH----hcCCeE
Q 000869            2 GGIGKTTLVKEVARKARKDK---LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQL----KREEKI   74 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~---~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l----~~~~~~   74 (1247)
                      +|.|||++|+++++.....-   .....+|+++....    +....   .+      .....+..+++..    ..+.++
T Consensus       225 PGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~e----Ll~ky---vG------ete~~ir~iF~~Ar~~a~~g~p~  291 (512)
T TIGR03689       225 PGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGPE----LLNKY---VG------ETERQIRLIFQRAREKASDGRPV  291 (512)
T ss_pred             CCCcHHHHHHHHHHhhccccccccCCceeEEeccchh----hcccc---cc------hHHHHHHHHHHHHHHHhhcCCCc
Confidence            79999999999999875321   12235555544321    11100   00      0111222233322    235789


Q ss_pred             EEEEeCCCCcc---------cc-----hhhccCCCC--CCCCcEEEEecCChhhhh-h-c---CCcceEEcCCCCHHHHH
Q 000869           75 LIILDNIWKRV---------DL-----ETVGIPFGD--DHRGCKLLLTARDRTVLF-S-M---GSEKNFLVDILKEEEAW  133 (1247)
Q Consensus        75 LlvlDd~~~~~---------~~-----~~l~~~~~~--~~~~~~vliTtR~~~~~~-~-~---~~~~~~~l~~l~~~ea~  133 (1247)
                      +++||+++...         +.     ..+...+..  ...+..||.||....... . .   +-...++++..+.++..
T Consensus       292 IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~  371 (512)
T TIGR03689       292 IVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAA  371 (512)
T ss_pred             eEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHH
Confidence            99999998531         11     122111111  112444666665544322 1 1   22456899999999999


Q ss_pred             HHHHHHhCC
Q 000869          134 RLFKLMAGD  142 (1247)
Q Consensus       134 ~l~~~~~~~  142 (1247)
                      ++|..+..+
T Consensus       372 ~Il~~~l~~  380 (512)
T TIGR03689       372 DIFSKYLTD  380 (512)
T ss_pred             HHHHHHhhc
Confidence            999999854

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.

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

Probab=95.13  E-value=0.72  Score=51.46  Aligned_cols=164  Identities=16%  Similarity=0.160  Sum_probs=94.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHh--CCCccccchHHHHHHHHHHHhcC-CeEEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKL--GLVLQEETESSRASRLHEQLKRE-EKILIIL   78 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l--~~~~~~~~~~~~~~~~~~~l~~~-~~~Llvl   78 (1247)
                      +|.|||.....++.+......=..++++++..-....+++..|...+  ....+ ....+..+.+.++.... .-+|+|+
T Consensus       184 PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~~~q~~~s~-~~~~~~~~~~~~h~~q~k~~~llVl  262 (529)
T KOG2227|consen  184 PGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSSLLQDLVSP-GTGMQHLEKFEKHTKQSKFMLLLVL  262 (529)
T ss_pred             CCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHHHHHHhcCC-chhHHHHHHHHHHHhcccceEEEEe
Confidence            69999999999999887531112458888888778888888887666  11111 11233344555555433 4688899


Q ss_pred             eCCCCc-----ccchhhccCCCCCCCCcEEEEe---------cCChhhhhh--cCCcceEEcCCCCHHHHHHHHHHHhCC
Q 000869           79 DNIWKR-----VDLETVGIPFGDDHRGCKLLLT---------ARDRTVLFS--MGSEKNFLVDILKEEEAWRLFKLMAGD  142 (1247)
Q Consensus        79 Dd~~~~-----~~~~~l~~~~~~~~~~~~vliT---------tR~~~~~~~--~~~~~~~~l~~l~~~ea~~l~~~~~~~  142 (1247)
                      |..|..     ..+..+ +.|++. +++|+|+.         -|-..-...  .-....+..++.+.++-.++|.+....
T Consensus       263 DEmD~L~tr~~~vLy~l-Fewp~l-p~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~  340 (529)
T KOG2227|consen  263 DEMDHLITRSQTVLYTL-FEWPKL-PNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSE  340 (529)
T ss_pred             chhhHHhhcccceeeee-hhcccC-CcceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhc
Confidence            998754     112222 223333 34444432         222111111  012346667899999999999999854


Q ss_pred             CCCChhhHHHHHHHHHHcCCCchHHH
Q 000869          143 DVENRELKSTATEVAKACKGLPIALT  168 (1247)
Q Consensus       143 ~~~~~~~~~~~~~i~~~~~g~Plai~  168 (1247)
                      .........+++.+++++.|.---+.
T Consensus       341 ~~t~~~~~~Aie~~ArKvaa~SGDlR  366 (529)
T KOG2227|consen  341 ESTSIFLNAAIELCARKVAAPSGDLR  366 (529)
T ss_pred             ccccccchHHHHHHHHHhccCchhHH
Confidence            33333344455666666655443333

>PRK12608 transcription termination factor Rho; Provisional

Probab=95.11  E-value=0.11  Score=57.40  Aligned_cols=82  Identities=11%  Similarity=0.217  Sum_probs=53.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCe-EEEEEcCC-ccCHHHHHHHHHHHhCCCccccchHH------HHHHHHHHHh-cCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDR-VVFSEVSQ-TIDIKKIQQAIAEKLGLVLQEETESS------RASRLHEQLK-REE   72 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~-~~w~~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~------~~~~~~~~l~-~~~   72 (1247)
                      +|+|||||++.+++..... +.+. ++|+-+++ ..+..++++.+...+.....+.....      .+.....++. .|+
T Consensus       142 pGtGKTTLl~~la~~i~~~-~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~~~~~v~~~~~~~Ae~f~~~Gk  220 (380)
T PRK12608        142 PRAGKTVLLQQIAAAVAAN-HPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERAKRLVEQGK  220 (380)
T ss_pred             CCCCHHHHHHHHHHHHHhc-CCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHHHHHHHHHHHHHHHHHHHHcCC
Confidence            6999999999999987643 2344 46666654 56788888888877765432222111      1222223332 489


Q ss_pred             eEEEEEeCCCCc
Q 000869           73 KILIILDNIWKR   84 (1247)
Q Consensus        73 ~~LlvlDd~~~~   84 (1247)
                      +++||+|++...
T Consensus       221 dVVLvlDsltr~  232 (380)
T PRK12608        221 DVVILLDSLTRL  232 (380)
T ss_pred             CEEEEEeCcHHH
Confidence            999999998643

>PRK08116 hypothetical protein; Validated

Probab=95.11  E-value=0.06  Score=57.93  Aligned_cols=94  Identities=18%  Similarity=0.173  Sum_probs=52.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++.....  -..++|+++      .+++..+...+....     ......+.+.+. +. =||||||+
T Consensus       123 ~GtGKThLa~aia~~l~~~--~~~v~~~~~------~~ll~~i~~~~~~~~-----~~~~~~~~~~l~-~~-dlLviDDl  187 (268)
T PRK08116        123 VGTGKTYLAACIANELIEK--GVPVIFVNF------PQLLNRIKSTYKSSG-----KEDENEIIRSLV-NA-DLLILDDL  187 (268)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCeEEEEEH------HHHHHHHHHHHhccc-----cccHHHHHHHhc-CC-CEEEEecc
Confidence            6999999999999998754  456777764      334555544443211     111223444453 33 38999999


Q ss_pred             CCc--ccchh--hccCCCC-CCCCcEEEEecCCh
Q 000869           82 WKR--VDLET--VGIPFGD-DHRGCKLLLTARDR  110 (1247)
Q Consensus        82 ~~~--~~~~~--l~~~~~~-~~~~~~vliTtR~~  110 (1247)
                      ...  .+|..  +...+-. ...+..+||||...
T Consensus       188 g~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        188 GAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             cCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            543  23321  1111111 12355699998654

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

Probab=95.07  E-value=0.18  Score=57.50  Aligned_cols=141  Identities=14%  Similarity=0.199  Sum_probs=77.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|+++++.....  |   +.+..      ..+...   .++      .....+..++.......+++|++|++
T Consensus       188 pGTGKT~LAkalA~~l~~~--f---i~i~~------s~l~~k---~~g------e~~~~lr~lf~~A~~~~P~ILfIDEI  247 (398)
T PTZ00454        188 PGTGKTMLAKAVAHHTTAT--F---IRVVG------SEFVQK---YLG------EGPRMVRDVFRLARENAPSIIFIDEV  247 (398)
T ss_pred             CCCCHHHHHHHHHHhcCCC--E---EEEeh------HHHHHH---hcc------hhHHHHHHHHHHHHhcCCeEEEEECH
Confidence            7999999999999875422  2   22221      111111   111      11223444555555578899999998


Q ss_pred             CCcc------------c----chhhccCCC--CCCCCcEEEEecCChhhhhh--c---CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRV------------D----LETVGIPFG--DDHRGCKLLLTARDRTVLFS--M---GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~------------~----~~~l~~~~~--~~~~~~~vliTtR~~~~~~~--~---~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +...            .    +..+...+.  ....+..||.||........  .   .-...+.++..+.++...+|..
T Consensus       248 D~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~  327 (398)
T PTZ00454        248 DSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQT  327 (398)
T ss_pred             hhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHH
Confidence            7431            0    111111111  11245678888876554331  1   2245788999999999999988


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCCc
Q 000869          139 MAGDDVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      +........+  ....++++.+.|.-
T Consensus       328 ~~~~~~l~~d--vd~~~la~~t~g~s  351 (398)
T PTZ00454        328 ITSKMNLSEE--VDLEDFVSRPEKIS  351 (398)
T ss_pred             HHhcCCCCcc--cCHHHHHHHcCCCC
Confidence            7743222211  12456667776654

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

Probab=95.01  E-value=0.13  Score=64.40  Aligned_cols=125  Identities=14%  Similarity=0.154  Sum_probs=67.4

Q ss_pred             CCccHHHHHHHHHHHhhhccC---C-Ce-EEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKL---F-DR-VVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~---f-~~-~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      +|+|||++|+.++++.....-   + +. ++.++.+.      +..       .........+++..+.+.+....+++|
T Consensus       212 pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~------l~a-------~~~~~g~~e~~l~~i~~~~~~~~~~IL  278 (731)
T TIGR02639       212 PGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS------LLA-------GTKYRGDFEERLKAVVSEIEKEPNAIL  278 (731)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH------Hhh-------hccccchHHHHHHHHHHHHhccCCeEE
Confidence            799999999999998754321   1 22 33333211      110       000011233455566666654568999


Q ss_pred             EEeCCCCcc----------cchhhccCCCCCCCCcEEEEecCChh----hhh---hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           77 ILDNIWKRV----------DLETVGIPFGDDHRGCKLLLTARDRT----VLF---SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        77 vlDd~~~~~----------~~~~l~~~~~~~~~~~~vliTtR~~~----~~~---~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      ++|+++...          +...+..+....+. -++|-+|...+    +..   .......+++++++.+++.+++...
T Consensus       279 fiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g~-i~~IgaTt~~e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~  357 (731)
T TIGR02639       279 FIDEIHTIVGAGATSGGSMDASNLLKPALSSGK-LRCIGSTTYEEYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGL  357 (731)
T ss_pred             EEecHHHHhccCCCCCccHHHHHHHHHHHhCCC-eEEEEecCHHHHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHH
Confidence            999987431          11122222222222 23444433211    110   1123458999999999999999976


Q ss_pred             h
Q 000869          140 A  140 (1247)
Q Consensus       140 ~  140 (1247)
                      .
T Consensus       358 ~  358 (731)
T TIGR02639       358 K  358 (731)
T ss_pred             H
Confidence            6

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=95.01  E-value=0.0082  Score=35.96  Aligned_cols=21  Identities=33%  Similarity=0.700  Sum_probs=12.4

Q ss_pred             CCcEEEccCCCCCcCchhhcC
Q 000869          417 NLEILSFSGSGIVKLPEELGQ  437 (1247)
Q Consensus       417 ~L~~L~L~~~~i~~lp~~i~~  437 (1247)
                      +|++||+++|.++.+|.+|++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            356666666666666655543

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=94.96  E-value=0.27  Score=54.90  Aligned_cols=69  Identities=12%  Similarity=0.084  Sum_probs=44.7

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCChh-hhh-hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~~-~~~-~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      +.+-++|+|+++...  ..+++...+..-..++.+|.+|.++. +.. -......+++.+++.++..+.+.+.
T Consensus       109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            566789999997652  33445444444445666666665443 322 2345778999999999998888653

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=94.94  E-value=0.35  Score=53.77  Aligned_cols=103  Identities=11%  Similarity=0.047  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHHh----cCCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCC-hhhhhh-cCCcceEEcCCCCH
Q 000869           58 SSRASRLHEQLK----REEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARD-RTVLFS-MGSEKNFLVDILKE  129 (1247)
Q Consensus        58 ~~~~~~~~~~l~----~~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~-~~~~~~-~~~~~~~~l~~l~~  129 (1247)
                      .+.+.++.+.+.    .+++-++|+|+++...  ...++.-.+-.-..++.+|.+|.+ ..+... ......+.+.+++.
T Consensus        90 idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq~~~~~~~~~  169 (334)
T PRK07993         90 VDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCRLHYLAPPPE  169 (334)
T ss_pred             HHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccccccCCCCCH
Confidence            334444444443    2677889999998752  223332222222335555555544 444432 34567889999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchH
Q 000869          130 EEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       130 ~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      +++.+.+.+..+.      ..+.+..+++.++|.|..
T Consensus       170 ~~~~~~L~~~~~~------~~~~a~~~~~la~G~~~~  200 (334)
T PRK07993        170 QYALTWLSREVTM------SQDALLAALRLSAGAPGA  200 (334)
T ss_pred             HHHHHHHHHccCC------CHHHHHHHHHHcCCCHHH
Confidence            9999888765321      123467889999999953

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=94.83  E-value=0.18  Score=63.79  Aligned_cols=147  Identities=14%  Similarity=0.096  Sum_probs=76.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCC-----CeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh-cCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLF-----DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK-REEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f-----~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~-~~~~~L   75 (1247)
                      +|+||||+|+.++++.....-.     ..++.++++.-..             .......-.+++..+.+... .+.+++
T Consensus       217 pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~a-------------g~~~~ge~e~~lk~ii~e~~~~~~~~I  283 (852)
T TIGR03345       217 AGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQA-------------GASVKGEFENRLKSVIDEVKASPQPII  283 (852)
T ss_pred             CCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhc-------------ccccchHHHHHHHHHHHHHHhcCCCeE
Confidence            7999999999999987533211     1233344432110             00001112234444444443 257899


Q ss_pred             EEEeCCCCcc---------cchhhccCCCCCCCCcEEEEecCChhh----hh---hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           76 IILDNIWKRV---------DLETVGIPFGDDHRGCKLLLTARDRTV----LF---SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        76 lvlDd~~~~~---------~~~~l~~~~~~~~~~~~vliTtR~~~~----~~---~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      |++|+++...         +...+..+....| .-++|-||...+.    ..   .......+.+++++.+++.+++...
T Consensus       284 LfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~G-~l~~IgaTT~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~  362 (852)
T TIGR03345       284 LFIDEAHTLIGAGGQAGQGDAANLLKPALARG-ELRTIAATTWAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGL  362 (852)
T ss_pred             EEEeChHHhccCCCccccccHHHHhhHHhhCC-CeEEEEecCHHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHH
Confidence            9999986541         1112322333233 2344445543221    11   1134468999999999999998666


Q ss_pred             hCC---CCCChhhHHHHHHHHHHcCC
Q 000869          140 AGD---DVENRELKSTATEVAKACKG  162 (1247)
Q Consensus       140 ~~~---~~~~~~~~~~~~~i~~~~~g  162 (1247)
                      ...   ...-.-..++...+++.+.+
T Consensus       363 ~~~~e~~~~v~i~d~al~~~~~ls~r  388 (852)
T TIGR03345       363 APVLEKHHGVLILDEAVVAAVELSHR  388 (852)
T ss_pred             HHhhhhcCCCeeCHHHHHHHHHHccc
Confidence            521   11111234555666666654

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.

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=94.81  E-value=0.33  Score=52.30  Aligned_cols=34  Identities=32%  Similarity=0.438  Sum_probs=22.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKI   40 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~   40 (1247)
                      +|+|||++|+++++...     ..++.+++....+..++
T Consensus        30 ~GtGKT~lA~~la~~lg-----~~~~~i~~~~~~~~~dl   63 (262)
T TIGR02640        30 AGTGKTTLAMHVARKRD-----RPVMLINGDAELTTSDL   63 (262)
T ss_pred             CCCCHHHHHHHHHHHhC-----CCEEEEeCCccCCHHHH
Confidence            79999999999997432     23556666555444443

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).

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

Probab=94.62  E-value=0.21  Score=57.25  Aligned_cols=112  Identities=21%  Similarity=0.165  Sum_probs=71.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      -++||||+++.+......     ..+++...+......-..+..                ..+...- ..++..++||.|
T Consensus        46 R~~GKTtll~~l~~~~~~-----~~iy~~~~d~~~~~~~l~d~~----------------~~~~~~~-~~~~~yifLDEI  103 (398)
T COG1373          46 RQVGKTTLLKLLIKGLLE-----EIIYINFDDLRLDRIELLDLL----------------RAYIELK-EREKSYIFLDEI  103 (398)
T ss_pred             ccccHHHHHHHHHhhCCc-----ceEEEEecchhcchhhHHHHH----------------HHHHHhh-ccCCceEEEecc
Confidence            368999999777655432     266665443322111111111                1111111 126789999999


Q ss_pred             CCcccchhhccCCCCCCCCcEEEEecCChhhhh------hcCCcceEEcCCCCHHHHHHHH
Q 000869           82 WKRVDLETVGIPFGDDHRGCKLLLTARDRTVLF------SMGSEKNFLVDILKEEEAWRLF  136 (1247)
Q Consensus        82 ~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~~~------~~~~~~~~~l~~l~~~ea~~l~  136 (1247)
                      +...+|+.....+.+.+.. +|++|+-+.....      ..+....+++-|||-.|-..+-
T Consensus       104 q~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~  163 (398)
T COG1373         104 QNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLK  163 (398)
T ss_pred             cCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhc
Confidence            9999999887777777766 8888887766533      2245678889999999887654

>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=94.46  E-value=0.094  Score=54.34  Aligned_cols=28  Identities=36%  Similarity=0.513  Sum_probs=23.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEV   31 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~   31 (1247)
                      .|.||||+++.+......  .|+.+++++-
T Consensus        22 sGSGKT~li~~lL~~~~~--~f~~I~l~t~   49 (241)
T PF04665_consen   22 SGSGKTTLIKSLLYYLRH--KFDHIFLITP   49 (241)
T ss_pred             CCCCHHHHHHHHHHhhcc--cCCEEEEEec
Confidence            699999999999988764  4888887754

This is thought to be an ATPase involved in viral DNA packaging [].

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.41  E-value=0.12  Score=48.84  Aligned_cols=39  Identities=18%  Similarity=0.312  Sum_probs=14.5

Q ss_pred             chhhhcCCCCCcEEEccCCCCccCC-cccccCCCCcEEEcc
Q 000869          363 PEKFFTGMKKLKVVDFCRMQFFSLP-PSIDHLLNLQTLCLD  402 (1247)
Q Consensus       363 ~~~~~~~l~~Lr~L~Ls~~~i~~lp-~~l~~l~~L~~L~L~  402 (1247)
                      ....|..+..|+.+++.++ +..++ .++.++.+|+.+.+.
T Consensus        27 ~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~   66 (129)
T PF13306_consen   27 GENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFP   66 (129)
T ss_dssp             -TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEET
T ss_pred             Chhhccccccccccccccc-ccccceeeeeccccccccccc
Confidence            4444455544555554442 33332 233444444444443

>CHL00095 clpC Clp protease ATP binding subunit

Probab=94.41  E-value=0.27  Score=62.50  Aligned_cols=125  Identities=14%  Similarity=0.203  Sum_probs=68.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCC----CeEEE-EEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLF----DRVVF-SEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f----~~~~w-~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      +|+|||++|+.++.+....+-.    +..+| ++.+      .++   +   |... .....+++..+.+.+...++++|
T Consensus       209 pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~------~l~---a---g~~~-~ge~e~rl~~i~~~~~~~~~~IL  275 (821)
T CHL00095        209 PGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIG------LLL---A---GTKY-RGEFEERLKRIFDEIQENNNIIL  275 (821)
T ss_pred             CCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHH------HHh---c---cCCC-ccHHHHHHHHHHHHHHhcCCeEE
Confidence            7999999999999987532211    22333 3321      111   0   1111 12234455666666655678999


Q ss_pred             EEeCCCCcc---------cchhhccCCCCCCCCcEEEEecCChhhhh-------hcCCcceEEcCCCCHHHHHHHHHHHh
Q 000869           77 ILDNIWKRV---------DLETVGIPFGDDHRGCKLLLTARDRTVLF-------SMGSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        77 vlDd~~~~~---------~~~~l~~~~~~~~~~~~vliTtR~~~~~~-------~~~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      ++|+++...         +...+..+....+. -++|-+|.......       .......+.+++.+.+++.+++....
T Consensus       276 fiDEih~l~~~g~~~g~~~~a~lLkp~l~rg~-l~~IgaTt~~ey~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l~  354 (821)
T CHL00095        276 VIDEVHTLIGAGAAEGAIDAANILKPALARGE-LQCIGATTLDEYRKHIEKDPALERRFQPVYVGEPSVEETIEILFGLR  354 (821)
T ss_pred             EEecHHHHhcCCCCCCcccHHHHhHHHHhCCC-cEEEEeCCHHHHHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHHH
Confidence            999996331         12223222222332 33444444433211       12344678899999999988887554

>PRK08181 transposase; Validated

Probab=94.35  E-value=0.056  Score=57.74  Aligned_cols=92  Identities=17%  Similarity=0.136  Sum_probs=50.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++.....  ...|+|+++      .++...+.....        .....+..+.+  .+.-|||+||+
T Consensus       115 ~GtGKTHLa~Aia~~a~~~--g~~v~f~~~------~~L~~~l~~a~~--------~~~~~~~l~~l--~~~dLLIIDDl  176 (269)
T PRK08181        115 PGGGKSHLAAAIGLALIEN--GWRVLFTRT------TDLVQKLQVARR--------ELQLESAIAKL--DKFDLLILDDL  176 (269)
T ss_pred             CCCcHHHHHHHHHHHHHHc--CCceeeeeH------HHHHHHHHHHHh--------CCcHHHHHHHH--hcCCEEEEecc
Confidence            6999999999999887643  346777764      344444433211        01122334444  35569999999


Q ss_pred             CCc--ccc--hhhccCCCCCCCCcEEEEecCChh
Q 000869           82 WKR--VDL--ETVGIPFGDDHRGCKLLLTARDRT  111 (1247)
Q Consensus        82 ~~~--~~~--~~l~~~~~~~~~~~~vliTtR~~~  111 (1247)
                      ...  .++  +.+...+.....+..+||||....
T Consensus       177 g~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~~  210 (269)
T PRK08181        177 AYVTKDQAETSVLFELISARYERRSILITANQPF  210 (269)
T ss_pred             ccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCCH
Confidence            654  111  112111111111234999987663

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=94.34  E-value=0.69  Score=51.34  Aligned_cols=103  Identities=16%  Similarity=0.157  Sum_probs=61.4

Q ss_pred             HHHHHHHHHHHh----cCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEE-EEecCChhhhh-hcCCcceEEcCCCCH
Q 000869           58 SSRASRLHEQLK----REEKILIILDNIWKR--VDLETVGIPFGDDHRGCKL-LLTARDRTVLF-SMGSEKNFLVDILKE  129 (1247)
Q Consensus        58 ~~~~~~~~~~l~----~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~v-liTtR~~~~~~-~~~~~~~~~l~~l~~  129 (1247)
                      .+.+.++.+.+.    .+++-++|+|+++..  +...++.-.+-.-..++.+ ++|++...+.. .......+.+.+++.
T Consensus       114 idqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~  193 (342)
T PRK06964        114 IEQVRALLDFCGVGTHRGGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAP  193 (342)
T ss_pred             HHHHHHHHHHhccCCccCCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCH
Confidence            444555555543    256678889999876  2333443333333345544 45555454443 234567999999999


Q ss_pred             HHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHH
Q 000869          130 EEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       130 ~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      ++..+.+.+. +.  .  +    ...++...+|.|.....
T Consensus       194 ~~~~~~L~~~-~~--~--~----~~~~l~~~~Gsp~~Al~  224 (342)
T PRK06964        194 EAAAAWLAAQ-GV--A--D----ADALLAEAGGAPLAALA  224 (342)
T ss_pred             HHHHHHHHHc-CC--C--h----HHHHHHHcCCCHHHHHH
Confidence            9999988775 21  1  1    12346778999964443

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=94.29  E-value=0.017  Score=34.62  Aligned_cols=21  Identities=24%  Similarity=0.456  Sum_probs=13.9

Q ss_pred             CCcEEEccCCCCccCCccccc
Q 000869          372 KLKVVDFCRMQFFSLPPSIDH  392 (1247)
Q Consensus       372 ~Lr~L~Ls~~~i~~lp~~l~~  392 (1247)
                      +|++|++++|.++.+|++|++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            467777777777766666544

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.20  E-value=0.11  Score=49.01  Aligned_cols=106  Identities=15%  Similarity=0.335  Sum_probs=66.3

Q ss_pred             cchhhhcCCCCCcEEEccCCCCccC-CcccccCCCCcEEEccCcCCCCc--ccccCCCCCcEEEccCCCCCcCch-hhcC
Q 000869          362 VPEKFFTGMKKLKVVDFCRMQFFSL-PPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPE-ELGQ  437 (1247)
Q Consensus       362 l~~~~~~~l~~Lr~L~Ls~~~i~~l-p~~l~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~-~i~~  437 (1247)
                      ++...|.++.+|+.+.+.. .+..+ ..+|..+.+|+.+.+.++ +..+  ..+.++.+|+.+.+.. .+..++. .+..
T Consensus         3 i~~~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~   79 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSN   79 (129)
T ss_dssp             E-TTTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT
T ss_pred             ECHHHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccc
Confidence            4677889999999999885 56666 456888889999999875 6665  5688888899999976 5555543 4667


Q ss_pred             CCCCcEEeccCCCCCcccChhhhcCCCCCCEEEeec
Q 000869          438 LTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN  473 (1247)
Q Consensus       438 L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~~L~l~~  473 (1247)
                      +.+|+.+++..+  +..+....+.+. +|+.+.+..
T Consensus        80 ~~~l~~i~~~~~--~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   80 CTNLKNIDIPSN--ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             -TTECEEEETTT---BEEHTTTTTT--T--EEE-TT
T ss_pred             cccccccccCcc--ccEEchhhhcCC-CceEEEECC
Confidence            889999988653  666666667776 888887754

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=94.07  E-value=0.4  Score=57.19  Aligned_cols=147  Identities=22%  Similarity=0.254  Sum_probs=78.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|++++......     .+.++.+      .+....   .+      .....+..+++......+++|++|++
T Consensus        97 pGtGKT~la~alA~~~~~~-----~~~i~~~------~~~~~~---~g------~~~~~l~~~f~~a~~~~p~Il~iDEi  156 (495)
T TIGR01241        97 PGTGKTLLAKAVAGEAGVP-----FFSISGS------DFVEMF---VG------VGASRVRDLFEQAKKNAPCIIFIDEI  156 (495)
T ss_pred             CCCCHHHHHHHHHHHcCCC-----eeeccHH------HHHHHH---hc------ccHHHHHHHHHHHHhcCCCEEEEech
Confidence            7999999999999875321     1222211      111111   11      11233444555555467899999999


Q ss_pred             CCccc----------------chhhccCCC--CCCCCcEEEEecCChhhhh----hc-CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRVD----------------LETVGIPFG--DDHRGCKLLLTARDRTVLF----SM-GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~~----------------~~~l~~~~~--~~~~~~~vliTtR~~~~~~----~~-~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +....                +..+...+.  ....+..||.||..+....    +. .-...+.++..+.++-.++|..
T Consensus       157 d~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~  236 (495)
T TIGR01241       157 DAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKV  236 (495)
T ss_pred             hhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHH
Confidence            76310                011111110  1123445666775544222    11 2345788999999999999998


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCC-chHHHHH
Q 000869          139 MAGDDVENRELKSTATEVAKACKGL-PIALTTI  170 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~-Plai~~~  170 (1247)
                      ++.......  ......+++.+.|. +-.|..+
T Consensus       237 ~l~~~~~~~--~~~l~~la~~t~G~sgadl~~l  267 (495)
T TIGR01241       237 HAKNKKLAP--DVDLKAVARRTPGFSGADLANL  267 (495)
T ss_pred             HHhcCCCCc--chhHHHHHHhCCCCCHHHHHHH
Confidence            884322211  12345788888774 3444433

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.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.06  E-value=0.0064  Score=59.18  Aligned_cols=60  Identities=22%  Similarity=0.243  Sum_probs=39.1

Q ss_pred             ecccceeecccCCCcceeccCCeeeeCCCcCeEEEcccCCccccC-CCCCCCCCcceEEeC
Q 000869         1138 FSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFT-TGELSTPPRVDVMYR 1197 (1247)
Q Consensus      1138 ~~~L~~L~l~~c~~L~~l~~~~~~~~~~sL~~L~i~~C~~l~~lp-~~~~~~p~L~~l~~~ 1197 (1247)
                      +++++.|.+.+|..+.+.+.+....-.++|+.|+|++||.|++.- .....+++|+.+.+.
T Consensus       124 l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL~~L~~lknLr~L~l~  184 (221)
T KOG3864|consen  124 LRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGLACLLKLKNLRRLHLY  184 (221)
T ss_pred             cchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHHHHHHHhhhhHHHHhc
Confidence            667777777777777666655443456777777777777777642 123556667776665

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

Probab=94.04  E-value=0.57  Score=53.81  Aligned_cols=120  Identities=18%  Similarity=0.272  Sum_probs=78.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-||++|+++-...       ||++..+.    +++..   +      .+....+..++++.+...+|+|.||.+
T Consensus       554 PGCGKTLlAKAVANEag~N-------FisVKGPE----LlNkY---V------GESErAVR~vFqRAR~saPCVIFFDEi  613 (802)
T KOG0733|consen  554 PGCGKTLLAKAVANEAGAN-------FISVKGPE----LLNKY---V------GESERAVRQVFQRARASAPCVIFFDEI  613 (802)
T ss_pred             CCccHHHHHHHHhhhccCc-------eEeecCHH----HHHHH---h------hhHHHHHHHHHHHhhcCCCeEEEecch
Confidence            7999999999999985533       67666543    22211   1      223456688999998889999999999


Q ss_pred             CCc-------cc------chhhccCCCC--CCCCcEEEEecCChhhhh----hcCC-cceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKR-------VD------LETVGIPFGD--DHRGCKLLLTARDRTVLF----SMGS-EKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~-------~~------~~~l~~~~~~--~~~~~~vliTtR~~~~~~----~~~~-~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      |..       ..      +.++..-+-.  ...|-.||-.|-.+++-.    +.+. ...+-|+.-..+|-..+++..+.
T Consensus       614 DaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  614 DALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVAILKTITK  693 (802)
T ss_pred             hhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHHHHHHHhc
Confidence            753       11      1222222111  234666777776666533    1122 34666788888999999999885

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=93.62  E-value=0.24  Score=51.50  Aligned_cols=38  Identities=24%  Similarity=0.378  Sum_probs=28.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQ   42 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~   42 (1247)
                      +|+|||++|.+++......  -..++|++... .+...+.+
T Consensus        21 ~GsGKT~l~~~~~~~~~~~--g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        21 PGSGKTNICMILAVNAARQ--GKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCeEEEEECCC-CCHHHHHH
Confidence            7999999999999876533  57899999976 55544433

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=93.53  E-value=0.0079  Score=58.55  Aligned_cols=67  Identities=24%  Similarity=0.126  Sum_probs=41.2

Q ss_pred             cccccEEEEecCCCcccccchHHHhhcCCccEEEecCCCcceeeccCCCcccccccccccceeeecccccch
Q 000869          971 FGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLN 1042 (1247)
Q Consensus       971 ~~~L~~L~l~~c~~l~~~~~~~~l~~l~~L~~L~i~~c~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~l~ 1042 (1247)
                      +.+++.|.+.+|..+.+.....+-+..++|+.|+|++|+.|++..     -+++..+++|+.|.|.+.+...
T Consensus       124 l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~G-----L~~L~~lknLr~L~l~~l~~v~  190 (221)
T KOG3864|consen  124 LRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGG-----LACLLKLKNLRRLHLYDLPYVA  190 (221)
T ss_pred             cchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhH-----HHHHHHhhhhHHHHhcCchhhh
Confidence            456777777777777765444444455677777777777777321     2223346666666666665543

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=93.53  E-value=0.6  Score=54.23  Aligned_cols=156  Identities=15%  Similarity=0.130  Sum_probs=87.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCc-----cccchHHHHHHHHHHHh----cCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL-----QEETESSRASRLHEQLK----REE   72 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~-----~~~~~~~~~~~~~~~l~----~~~   72 (1247)
                      -|+||||+|+-+++.....+.-+       ..+...=..-+.|...--.+.     -.....+.++++.+...    .++
T Consensus        47 RGvGKTt~Ari~AkalNC~~~~~-------~ePC~~C~~Ck~I~~g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~r  119 (515)
T COG2812          47 RGVGKTTIARILAKALNCENGPT-------AEPCGKCISCKEINEGSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGR  119 (515)
T ss_pred             CCcCchhHHHHHHHHhcCCCCCC-------CCcchhhhhhHhhhcCCcccchhhhhhhccChHHHHHHHHHhccCCcccc
Confidence            49999999999999886543111       111111111122221100000     01112334444554443    256


Q ss_pred             eEEEEEeCCCCc--ccchhhccCCCCCCCCcE-EEEecCChhhhh-hcCCcceEEcCCCCHHHHHHHHHHHhCCCCCChh
Q 000869           73 KILIILDNIWKR--VDLETVGIPFGDDHRGCK-LLLTARDRTVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRE  148 (1247)
Q Consensus        73 ~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~-vliTtR~~~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~  148 (1247)
                      -=+.|+|.|+-.  ..|.++.-.+..-....+ |+.||-...+.. ....+..|.++.++.++-...+...+...... -
T Consensus       120 yKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~-~  198 (515)
T COG2812         120 YKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGIN-I  198 (515)
T ss_pred             ceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCc-c
Confidence            678899999765  445555433333233334 445665555544 34567899999999999999998888533222 2


Q ss_pred             hHHHHHHHHHHcCCCch
Q 000869          149 LKSTATEVAKACKGLPI  165 (1247)
Q Consensus       149 ~~~~~~~i~~~~~g~Pl  165 (1247)
                      ..++..-|++..+|...
T Consensus       199 e~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         199 EEDALSLIARAAEGSLR  215 (515)
T ss_pred             CHHHHHHHHHHcCCChh
Confidence            34667777877777653

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=93.49  E-value=0.38  Score=51.44  Aligned_cols=48  Identities=33%  Similarity=0.512  Sum_probs=33.2

Q ss_pred             CCccHHHHHHHHHHHhhhcc----CCCeEEEEEcCCccCHHHHHHHHHHHhCC
Q 000869            2 GGIGKTTLVKEVARKARKDK----LFDRVVFSEVSQTIDIKKIQQAIAEKLGL   50 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~----~f~~~~w~~~~~~~~~~~~~~~i~~~l~~   50 (1247)
                      +|+|||+||.+++-......    .=..|+||+....++...+. +|++..+.
T Consensus        47 ~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~   98 (256)
T PF08423_consen   47 SGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGL   98 (256)
T ss_dssp             TTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS
T ss_pred             cccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhcccc
Confidence            79999999998876543221    12359999999888877664 46666554

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 ....

>PRK10536 hypothetical protein; Provisional

Probab=93.45  E-value=0.22  Score=51.97  Aligned_cols=28  Identities=32%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFS   29 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~   29 (1247)
                      +|.|||+||.+++.+.-..+.|+.++-.
T Consensus        83 aGTGKT~La~a~a~~~l~~~~~~kIiI~  110 (262)
T PRK10536         83 AGCGKTWISAAKAAEALIHKDVDRIIVT  110 (262)
T ss_pred             CCCCHHHHHHHHHHHHHhcCCeeEEEEe
Confidence            7999999999999864323447666554

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

Probab=93.44  E-value=0.17  Score=51.42  Aligned_cols=20  Identities=25%  Similarity=0.461  Sum_probs=17.4

Q ss_pred             CCCccHHHHHHHHHHHhhhc
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      .+|+|||++++++++.....
T Consensus        32 ~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen   32 ESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             -TTSSHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHhc
Confidence            37999999999999998866

>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=93.35  E-value=0.35  Score=47.62  Aligned_cols=109  Identities=15%  Similarity=0.104  Sum_probs=58.5

Q ss_pred             CCccHHHHHHHHHHHhhhccC------------------CCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKL------------------FDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASR   63 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~------------------f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~   63 (1247)
                      .|+||+++|.++++..-....                  ...+.|+.-.....                  .-..+.+.+
T Consensus        28 ~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~------------------~i~i~~ir~   89 (162)
T PF13177_consen   28 SGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK------------------SIKIDQIRE   89 (162)
T ss_dssp             TTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS------------------SBSHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc------------------hhhHHHHHH
Confidence            599999999999998855332                  22344554332200                  011222333


Q ss_pred             HHHHHh----cCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCChhh-hh-hcCCcceEEcCCCC
Q 000869           64 LHEQLK----REEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRTV-LF-SMGSEKNFLVDILK  128 (1247)
Q Consensus        64 ~~~~l~----~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~~-~~-~~~~~~~~~l~~l~  128 (1247)
                      +...+.    .+++-++|+|+++..  +...++.-.+-.-..++++|++|++..- .. -......+.+.+++
T Consensus        90 i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen   90 IIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             HHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE----
T ss_pred             HHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCCCC
Confidence            333322    246788999999875  3344554444444567888888877653 22 23456677776654

...

>PRK06921 hypothetical protein; Provisional

Probab=93.34  E-value=0.15  Score=54.70  Aligned_cols=62  Identities=15%  Similarity=0.237  Sum_probs=37.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.||.++++....+. -..|+|++..      ++...+...+          .......+.+  ..--|||+||+
T Consensus       126 ~G~GKThLa~aia~~l~~~~-g~~v~y~~~~------~l~~~l~~~~----------~~~~~~~~~~--~~~dlLiIDDl  186 (266)
T PRK06921        126 PGSGKTHLLTAAANELMRKK-GVPVLYFPFV------EGFGDLKDDF----------DLLEAKLNRM--KKVEVLFIDDL  186 (266)
T ss_pred             CCCcHHHHHHHHHHHHhhhc-CceEEEEEHH------HHHHHHHHHH----------HHHHHHHHHh--cCCCEEEEecc
Confidence            69999999999999876431 3557787752      2223332221          1122233444  35679999999


Q ss_pred             C
Q 000869           82 W   82 (1247)
Q Consensus        82 ~   82 (1247)
                      .
T Consensus       187 ~  187 (266)
T PRK06921        187 F  187 (266)
T ss_pred             c
Confidence            3

>PRK06526 transposase; Provisional

Probab=93.34  E-value=0.083  Score=56.13  Aligned_cols=65  Identities=23%  Similarity=0.226  Sum_probs=37.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++..... .+ .|+|++.      .++...+.....    .    .........+  .+.-+||+||+
T Consensus       107 ~GtGKThLa~al~~~a~~~-g~-~v~f~t~------~~l~~~l~~~~~----~----~~~~~~l~~l--~~~dlLIIDD~  168 (254)
T PRK06526        107 PGTGKTHLAIGLGIRACQA-GH-RVLFATA------AQWVARLAAAHH----A----GRLQAELVKL--GRYPLLIVDEV  168 (254)
T ss_pred             CCCchHHHHHHHHHHHHHC-CC-chhhhhH------HHHHHHHHHHHh----c----CcHHHHHHHh--ccCCEEEEccc
Confidence            7999999999999887643 22 4555433      334444432210    0    1112222333  34568999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       169 g~~  171 (254)
T PRK06526        169 GYI  171 (254)
T ss_pred             ccC
Confidence            754

>PTZ00202 tuzin; Provisional

Probab=93.29  E-value=0.34  Score=54.03  Aligned_cols=130  Identities=18%  Similarity=0.229  Sum_probs=72.6

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh----c-CCeEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK----R-EEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----~-~~~~L   75 (1247)
                      .+|+||||+++.++....    + ..++++..   +..++++.++..||.+.. ....+....+.+.+.    . |++.+
T Consensus       294 ~~G~GKTTLlR~~~~~l~----~-~qL~vNpr---g~eElLr~LL~ALGV~p~-~~k~dLLrqIqeaLl~~~~e~GrtPV  364 (550)
T PTZ00202        294 FRGCGKSSLCRSAVRKEG----M-PAVFVDVR---GTEDTLRSVVKALGVPNV-EACGDLLDFISEACRRAKKMNGETPL  364 (550)
T ss_pred             CCCCCHHHHHHHHHhcCC----c-eEEEECCC---CHHHHHHHHHHHcCCCCc-ccHHHHHHHHHHHHHHHHHhCCCCEE
Confidence            479999999999996643    1 24444444   679999999999997432 222333333333333    3 67788


Q ss_pred             EEEeCCCCc--c-cchhhccCCCCCCCCcEEEEecCChhhh--h-hcCCcceEEcCCCCHHHHHHHHHHHh
Q 000869           76 IILDNIWKR--V-DLETVGIPFGDDHRGCKLLLTARDRTVL--F-SMGSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        76 lvlDd~~~~--~-~~~~l~~~~~~~~~~~~vliTtR~~~~~--~-~~~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      ||+-=-+..  . .+.... .+.--..-|.|++----+.+-  . ....-..|-+++|+.++|.+......
T Consensus       365 LII~lreg~~l~rvyne~v-~la~drr~ch~v~evpleslt~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        365 LVLKLREGSSLQRVYNEVV-ALACDRRLCHVVIEVPLESLTIANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             EEEEecCCCcHHHHHHHHH-HHHccchhheeeeeehHhhcchhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            887432221  1 111100 111112345566533222111  1 12334578899999999988776554

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=93.23  E-value=0.29  Score=53.67  Aligned_cols=77  Identities=25%  Similarity=0.377  Sum_probs=53.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcccc--chHHHHHHHHHHHhcCCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE--TESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      +|||||||..+++.+...+  - .|.||+-.+...   -.+--+++|+......  -.....+.+.+.+...++-++|+|
T Consensus       102 PGIGKSTLLLQva~~lA~~--~-~vLYVsGEES~~---QiklRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~p~lvVID  175 (456)
T COG1066         102 PGIGKSTLLLQVAARLAKR--G-KVLYVSGEESLQ---QIKLRADRLGLPTNNLYLLAETNLEDIIAELEQEKPDLVVID  175 (456)
T ss_pred             CCCCHHHHHHHHHHHHHhc--C-cEEEEeCCcCHH---HHHHHHHHhCCCccceEEehhcCHHHHHHHHHhcCCCEEEEe
Confidence            7999999999999998855  2 899997554332   2334467777544322  233344566666666899999999


Q ss_pred             CCCCc
Q 000869           80 NIWKR   84 (1247)
Q Consensus        80 d~~~~   84 (1247)
                      .++..
T Consensus       176 SIQT~  180 (456)
T COG1066         176 SIQTL  180 (456)
T ss_pred             cccee
Confidence            99754

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=93.17  E-value=0.37  Score=51.30  Aligned_cols=80  Identities=24%  Similarity=0.278  Sum_probs=44.9

Q ss_pred             CCccHHHHHHHHHHHhhhccC----CCeEEEEEcCCccCHHHHHHHHHHHhCCCccc----------c---chHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKL----FDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE----------E---TESSRASRL   64 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~----f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~----------~---~~~~~~~~~   64 (1247)
                      +|+|||++|.+++........    -..++|++....++...+ .++++..+.....          .   ........+
T Consensus        28 ~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl-~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~l~~l  106 (235)
T cd01123          28 FGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERL-VQIAERFGLDPEEVLDNIYVARAYNSDHQLQLLEEL  106 (235)
T ss_pred             CCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHH-HHHHHHhccChHhHhcCEEEEecCCHHHHHHHHHHH
Confidence            799999999999865432211    267999998886665433 3333333321110          0   011122333


Q ss_pred             HHHHhcC-CeEEEEEeCCC
Q 000869           65 HEQLKRE-EKILIILDNIW   82 (1247)
Q Consensus        65 ~~~l~~~-~~~LlvlDd~~   82 (1247)
                      ...+.+. +.-++|+|.+.
T Consensus       107 ~~~l~~~~~~~liVIDSis  125 (235)
T cd01123         107 EAILIESSRIKLVIVDSVT  125 (235)
T ss_pred             HHHHhhcCCeeEEEEeCcH
Confidence            3444444 67788888875

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 .

>TIGR02012 tigrfam_recA protein RecA

Probab=92.95  E-value=0.3  Score=53.41  Aligned_cols=75  Identities=21%  Similarity=0.271  Sum_probs=47.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc------ccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ------EETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      +|+||||||.+++......  -..++||+.....+..     .++.++.+..      .....+....+....+.+..-+
T Consensus        64 ~GsGKTtLaL~~~~~~~~~--g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li~~~~~~l  136 (321)
T TIGR02012        64 ESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAETLVRSGAVDI  136 (321)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhccCCcE
Confidence            6999999999998876533  4568899887765543     3555554321      1122222333333344467789


Q ss_pred             EEEeCCCC
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlDd~~~   83 (1247)
                      +|+|.+..
T Consensus       137 IVIDSv~a  144 (321)
T TIGR02012       137 IVVDSVAA  144 (321)
T ss_pred             EEEcchhh
Confidence            99999853

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.

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=92.87  E-value=0.44  Score=50.59  Aligned_cols=80  Identities=23%  Similarity=0.390  Sum_probs=46.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCe-EEEEEcCCc-cCHHHHHHHHHHHhCCCc-------cccchHH------HHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDR-VVFSEVSQT-IDIKKIQQAIAEKLGLVL-------QEETESS------RASRLHE   66 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~-~~w~~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~------~~~~~~~   66 (1247)
                      +|+|||+||+.+++.....  |+. ++++-+++. ....++.+.+...=.+..       .+.....      ....+-+
T Consensus        78 ~G~GKTtLa~~i~~~i~~~--~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~~a~~~AE  155 (274)
T cd01133          78 AGVGKTVLIMELINNIAKA--HGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVALTGLTMAE  155 (274)
T ss_pred             CCCChhHHHHHHHHHHHhc--CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            6999999999999988743  544 555556544 446666666654321111       1111111      1122233


Q ss_pred             HHh--cCCeEEEEEeCCCC
Q 000869           67 QLK--REEKILIILDNIWK   83 (1247)
Q Consensus        67 ~l~--~~~~~LlvlDd~~~   83 (1247)
                      +++  .++++|+++||+-.
T Consensus       156 yfr~~~g~~Vl~~~Dsltr  174 (274)
T cd01133         156 YFRDEEGQDVLLFIDNIFR  174 (274)
T ss_pred             HHHHhcCCeEEEEEeChhH
Confidence            332  28999999999854

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.

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

Probab=92.80  E-value=0.45  Score=58.93  Aligned_cols=126  Identities=17%  Similarity=0.201  Sum_probs=68.0

Q ss_pred             CCccHHHHHHHHHHHhhhccC----CCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKL----FDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILII   77 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~----f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Llv   77 (1247)
                      +|+|||++|+.+++.......    .+..+|..     +...+       +..........++...+.+.+....+.+|+
T Consensus       216 pGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l-------laG~~~~Ge~e~rl~~l~~~l~~~~~~ILf  283 (758)
T PRK11034        216 SGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL-------LAGTKYRGDFEKRFKALLKQLEQDTNSILF  283 (758)
T ss_pred             CCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH-------hcccchhhhHHHHHHHHHHHHHhcCCCEEE
Confidence            799999999999987643221    12233321     11111       111111112334455555555545678999


Q ss_pred             EeCCCCc----------ccchhhccCCCCCCCCcEEEEecCChhhhh-------hcCCcceEEcCCCCHHHHHHHHHHHh
Q 000869           78 LDNIWKR----------VDLETVGIPFGDDHRGCKLLLTARDRTVLF-------SMGSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        78 lDd~~~~----------~~~~~l~~~~~~~~~~~~vliTtR~~~~~~-------~~~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      +|+++..          .+...+..++...+ .-+||-+|...+...       ..+....+.+++++.+++.+++....
T Consensus       284 IDEIh~L~g~g~~~~g~~d~~nlLkp~L~~g-~i~vIgATt~~E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        284 IDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             eccHHHHhccCCCCCcHHHHHHHHHHHHhCC-CeEEEecCChHHHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            9999743          11222222333232 233444444333211       11334689999999999999999776

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=92.78  E-value=0.84  Score=58.31  Aligned_cols=125  Identities=15%  Similarity=0.184  Sum_probs=67.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCC-----CeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhc-CCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLF-----DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKR-EEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f-----~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~-~~~~L   75 (1247)
                      +|+|||++|..++++...+.-+     ..+++++++.      +.   +   +.. .......++..+.+.+.. +++++
T Consensus       203 pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~------l~---a---~~~-~~g~~e~~l~~~l~~~~~~~~~~I  269 (852)
T TIGR03346       203 PGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA------LI---A---GAK-YRGEFEERLKAVLNEVTKSEGQII  269 (852)
T ss_pred             CCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH------Hh---h---cch-hhhhHHHHHHHHHHHHHhcCCCeE
Confidence            6999999999999987532111     2234444321      10   0   000 001223344555555542 56899


Q ss_pred             EEEeCCCCcc---------cchhhccCCCCCCCCcEEEEecCChhhhh-------hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           76 IILDNIWKRV---------DLETVGIPFGDDHRGCKLLLTARDRTVLF-------SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        76 lvlDd~~~~~---------~~~~l~~~~~~~~~~~~vliTtR~~~~~~-------~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      |++|+++...         +...+..+....+. -++|-+|.......       .......+.++..+.++..+++...
T Consensus       270 LfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~g~-i~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~  348 (852)
T TIGR03346       270 LFIDELHTLVGAGKAEGAMDAGNMLKPALARGE-LHCIGATTLDEYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGL  348 (852)
T ss_pred             EEeccHHHhhcCCCCcchhHHHHHhchhhhcCc-eEEEEeCcHHHHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHH
Confidence            9999997542         11222223333332 23444443332210       1134457889999999999999877


Q ss_pred             h
Q 000869          140 A  140 (1247)
Q Consensus       140 ~  140 (1247)
                      .
T Consensus       349 ~  349 (852)
T TIGR03346       349 K  349 (852)
T ss_pred             H
Confidence            5

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.

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

Probab=92.72  E-value=0.49  Score=55.36  Aligned_cols=150  Identities=17%  Similarity=0.144  Sum_probs=79.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc--cCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT--IDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      .|+|||+||++++++.. +...-.+.+++++.-  .....+++.+-.-+                -..+. -.+.++|||
T Consensus       440 ~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~vf----------------se~~~-~~PSiIvLD  501 (952)
T KOG0735|consen  440 KGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKFLNNVF----------------SEALW-YAPSIIVLD  501 (952)
T ss_pred             CCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHHHHHHH----------------HHHHh-hCCcEEEEc
Confidence            59999999999999988 555666777877642  33444444443221                11111 578999999


Q ss_pred             CCCCcc--------cch-------hhc-cCCCC-CCCCcE--EEEecCChhhhh-----hcCCcceEEcCCCCHHHHHHH
Q 000869           80 NIWKRV--------DLE-------TVG-IPFGD-DHRGCK--LLLTARDRTVLF-----SMGSEKNFLVDILKEEEAWRL  135 (1247)
Q Consensus        80 d~~~~~--------~~~-------~l~-~~~~~-~~~~~~--vliTtR~~~~~~-----~~~~~~~~~l~~l~~~ea~~l  135 (1247)
                      |++-..        +|+       ++. ..... ...+.+  +|-|........     .........++.+...+-.++
T Consensus       502 dld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~ap~~~~R~~I  581 (952)
T KOG0735|consen  502 DLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPAPAVTRRKEI  581 (952)
T ss_pred             chhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCCcchhHHHHH
Confidence            986431        111       000 00000 112333  444444333222     111223667888888888888


Q ss_pred             HHHHhCCCCCChhhHHHHHHHHHHcCC-CchHHHHH
Q 000869          136 FKLMAGDDVENRELKSTATEVAKACKG-LPIALTTI  170 (1247)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~i~~~~~g-~Plai~~~  170 (1247)
                      +............+.+ ..-+..+|.| .|.-+.+.
T Consensus       582 L~~~~s~~~~~~~~~d-Ld~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  582 LTTIFSKNLSDITMDD-LDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             HHHHHHhhhhhhhhHH-HHHHHHhcCCccchhHHHH
Confidence            8877733222112222 2226777765 45444443

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=92.67  E-value=0.084  Score=53.81  Aligned_cols=44  Identities=16%  Similarity=0.257  Sum_probs=25.9

Q ss_pred             CCCCCccEEEccCCCCcccc-ccchhhhcCCCCCcEEEccCCCCc
Q 000869          341 LECPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFF  384 (1247)
Q Consensus       341 ~~~~~L~~L~l~~n~~~~~~-~l~~~~~~~l~~Lr~L~Ls~~~i~  384 (1247)
                      .+||+|+..+|+.|-+.... ....++++.-..|..|.+++|.+.
T Consensus        89 lkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlG  133 (388)
T COG5238          89 LKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLG  133 (388)
T ss_pred             hcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCC
Confidence            36777777777777654332 112345556666666666666554

>PRK09183 transposase/IS protein; Provisional

Probab=92.62  E-value=0.2  Score=53.60  Aligned_cols=65  Identities=20%  Similarity=0.205  Sum_probs=36.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||+||.+++......  -..|.+++.      .++...+......        .....+.+... ...-++|+||+
T Consensus       111 ~GtGKThLa~al~~~a~~~--G~~v~~~~~------~~l~~~l~~a~~~--------~~~~~~~~~~~-~~~dlLiiDdl  173 (259)
T PRK09183        111 SGVGKTHLAIALGYEAVRA--GIKVRFTTA------ADLLLQLSTAQRQ--------GRYKTTLQRGV-MAPRLLIIDEI  173 (259)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCeEEEEeH------HHHHHHHHHHHHC--------CcHHHHHHHHh-cCCCEEEEccc
Confidence            6999999999998875532  234556542      2333333221110        01222222222 45679999999


Q ss_pred             CC
Q 000869           82 WK   83 (1247)
Q Consensus        82 ~~   83 (1247)
                      +-
T Consensus       174 g~  175 (259)
T PRK09183        174 GY  175 (259)
T ss_pred             cc
Confidence            75

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=92.57  E-value=0.5  Score=59.81  Aligned_cols=76  Identities=17%  Similarity=0.193  Sum_probs=40.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.+|+++++.....  ....+-++.+...+...+    .+-+|....-... +....+...+++....+|+||++
T Consensus       605 ~GvGKT~lA~~La~~l~~~--~~~~~~~dmse~~~~~~~----~~l~g~~~gyvg~-~~~g~L~~~v~~~p~svvllDEi  677 (852)
T TIGR03345       605 SGVGKTETALALAELLYGG--EQNLITINMSEFQEAHTV----SRLKGSPPGYVGY-GEGGVLTEAVRRKPYSVVLLDEV  677 (852)
T ss_pred             CCCCHHHHHHHHHHHHhCC--CcceEEEeHHHhhhhhhh----ccccCCCCCcccc-cccchHHHHHHhCCCcEEEEech
Confidence            6999999999999886432  233444454433222111    1112222111110 01112334445567889999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       678 eka  680 (852)
T TIGR03345       678 EKA  680 (852)
T ss_pred             hhc
Confidence            865

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.

>PRK09354 recA recombinase A; Provisional

Probab=92.53  E-value=0.39  Score=52.97  Aligned_cols=75  Identities=23%  Similarity=0.279  Sum_probs=47.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc------ccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ------EETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      +|+||||||.+++......  -..++||+.....+..     .++.+|.+..      .....+....+...+..+..-+
T Consensus        69 ~GsGKTtLal~~~~~~~~~--G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~li~s~~~~l  141 (349)
T PRK09354         69 ESSGKTTLALHAIAEAQKA--GGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADTLVRSGAVDL  141 (349)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHHhhcCCCCE
Confidence            6999999999998776533  4678999998777653     4555554331      1122222233333334467789


Q ss_pred             EEEeCCCC
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlDd~~~   83 (1247)
                      +|+|.|..
T Consensus       142 IVIDSvaa  149 (349)
T PRK09354        142 IVVDSVAA  149 (349)
T ss_pred             EEEeChhh
Confidence            99999853

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=92.51  E-value=0.7  Score=44.67  Aligned_cols=109  Identities=24%  Similarity=0.216  Sum_probs=57.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCC---ccCHHHHHHHHH----HHhCCCc--cccchHH-------HHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ---TIDIKKIQQAIA----EKLGLVL--QEETESS-------RASRLH   65 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~---~~~~~~~~~~i~----~~l~~~~--~~~~~~~-------~~~~~~   65 (1247)
                      .|.||||+|...+-+....  =..|.++.+-.   ...-..+++.+-    .+.+...  ...+..+       ..+...
T Consensus        11 ~G~Gkt~~a~g~~~ra~~~--g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~~~~~a~   88 (159)
T cd00561          11 NGKGKTTAALGLALRALGH--GYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAEGWAFAK   88 (159)
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHHHHHHHH
Confidence            5899999999999877633  23455544322   223333333331    0001100  0011111       112333


Q ss_pred             HHHhcCCeEEEEEeCCCCc-----ccchhhccCCCCCCCCcEEEEecCChhh
Q 000869           66 EQLKREEKILIILDNIWKR-----VDLETVGIPFGDDHRGCKLLLTARDRTV  112 (1247)
Q Consensus        66 ~~l~~~~~~LlvlDd~~~~-----~~~~~l~~~~~~~~~~~~vliTtR~~~~  112 (1247)
                      ..+..+.-=|+|||.+--.     .+.+.+...+.....+.-||+|.|+..-
T Consensus        89 ~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p~  140 (159)
T cd00561          89 EAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAPK  140 (159)
T ss_pred             HHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCCH
Confidence            3344467789999998543     2233333344445567779999999764

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.

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=92.49  E-value=1.9  Score=46.98  Aligned_cols=145  Identities=14%  Similarity=0.075  Sum_probs=78.9

Q ss_pred             CCccHHHHHHHHHHHhhh--------ccCCCeEEEEEc-CCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCC
Q 000869            2 GGIGKTTLVKEVARKARK--------DKLFDRVVFSEV-SQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREE   72 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~--------~~~f~~~~w~~~-~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~   72 (1247)
                      .|+||+++|+++++..-+        ..+.+.+++++. +...+..++. ++.+.+....               ...+.
T Consensus        27 eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g~~i~vd~Ir-~l~~~~~~~~---------------~~~~~   90 (299)
T PRK07132         27 YNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFDKDLSKSEFL-SAINKLYFSS---------------FVQSQ   90 (299)
T ss_pred             CCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCCCcCCHHHHH-HHHHHhccCC---------------cccCC
Confidence            488999999999888722        222334444432 2222222222 2232221111               01157


Q ss_pred             eEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEec-CChhhhhh-cCCcceEEcCCCCHHHHHHHHHHHhCCCCCChh
Q 000869           73 KILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTA-RDRTVLFS-MGSEKNFLVDILKEEEAWRLFKLMAGDDVENRE  148 (1247)
Q Consensus        73 ~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTt-R~~~~~~~-~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~  148 (1247)
                      +-++|+|+++...  ...++.-.+..-...+.+|++| +...+... ...+..+++.++++++..+.+.+. +   .   
T Consensus        91 ~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~~l~~~-~---~---  163 (299)
T PRK07132         91 KKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILAKLLSK-N---K---  163 (299)
T ss_pred             ceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHHHHHHc-C---C---
Confidence            7888889987653  2334444444444566666544 44444432 355789999999999998887764 2   1   


Q ss_pred             hHHHHHHHHHHcCCCchHHHH
Q 000869          149 LKSTATEVAKACKGLPIALTT  169 (1247)
Q Consensus       149 ~~~~~~~i~~~~~g~Plai~~  169 (1247)
                      ..+.+..++...+|.=.|+..
T Consensus       164 ~~~~a~~~a~~~~~~~~a~~~  184 (299)
T PRK07132        164 EKEYNWFYAYIFSNFEQAEKY  184 (299)
T ss_pred             ChhHHHHHHHHcCCHHHHHHH
Confidence            123455666666663244444

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

Probab=92.43  E-value=0.1  Score=52.12  Aligned_cols=65  Identities=25%  Similarity=0.313  Sum_probs=38.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.||.++++.....  =..|.|+++      .+++..+..    .....    ......+++.  +-=||||||+
T Consensus        56 ~G~GKThLa~ai~~~~~~~--g~~v~f~~~------~~L~~~l~~----~~~~~----~~~~~~~~l~--~~dlLilDDl  117 (178)
T PF01695_consen   56 PGTGKTHLAVAIANEAIRK--GYSVLFITA------SDLLDELKQ----SRSDG----SYEELLKRLK--RVDLLILDDL  117 (178)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--T--EEEEEH------HHHHHHHHC----CHCCT----THCHHHHHHH--TSSCEEEETC
T ss_pred             HhHHHHHHHHHHHHHhccC--CcceeEeec------Cceeccccc----ccccc----chhhhcCccc--cccEeccccc
Confidence            6999999999999987643  245777764      334444432    11111    1223445554  4567889999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      ...
T Consensus       118 G~~  120 (178)
T PF01695_consen  118 GYE  120 (178)
T ss_dssp             TSS
T ss_pred             cee
Confidence            764

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.

>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=92.41  E-value=3.2  Score=46.67  Aligned_cols=102  Identities=12%  Similarity=0.156  Sum_probs=71.3

Q ss_pred             CeEEEEEeCCCCc-----------ccchhhccCCCCCCCCcEEEEecCChhhhh----hc--CCcceEEcCCCCHHHHHH
Q 000869           72 EKILIILDNIWKR-----------VDLETVGIPFGDDHRGCKLLLTARDRTVLF----SM--GSEKNFLVDILKEEEAWR  134 (1247)
Q Consensus        72 ~~~LlvlDd~~~~-----------~~~~~l~~~~~~~~~~~~vliTtR~~~~~~----~~--~~~~~~~l~~l~~~ea~~  134 (1247)
                      .+-+||+||+...           .+|.+.   +- ..+-..||++|-+....+    .+  .....+.|...+.+.|.+
T Consensus       148 ~~PVVVIdnF~~k~~~~~~iy~~laeWAa~---Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~  223 (431)
T PF10443_consen  148 RRPVVVIDNFLHKAEENDFIYDKLAEWAAS---LV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQ  223 (431)
T ss_pred             cCCEEEEcchhccCcccchHHHHHHHHHHH---HH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHH
Confidence            3678999998543           234432   22 223456888887766544    22  234677899999999999


Q ss_pred             HHHHHhCCCCCC-------------------hhhHHHHHHHHHHcCCCchHHHHHHHHHhcC
Q 000869          135 LFKLMAGDDVEN-------------------RELKSTATEVAKACKGLPIALTTIARALRNK  177 (1247)
Q Consensus       135 l~~~~~~~~~~~-------------------~~~~~~~~~i~~~~~g~Plai~~~a~~l~~~  177 (1247)
                      +...+.......                   ..........++.+||=-.-+..+++.++..
T Consensus       224 yV~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksG  285 (431)
T PF10443_consen  224 YVLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSG  285 (431)
T ss_pred             HHHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcC
Confidence            999998532110                   2345567788999999999999999999877

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 [].

>PRK08939 primosomal protein DnaI; Reviewed

Probab=92.39  E-value=0.23  Score=54.45  Aligned_cols=90  Identities=13%  Similarity=0.106  Sum_probs=52.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.||.++++.....  -..|.|+.+.      +++..+....+..        ...+..+.+  .+-=||||||+
T Consensus       165 ~G~GKThLa~Aia~~l~~~--g~~v~~~~~~------~l~~~lk~~~~~~--------~~~~~l~~l--~~~dlLiIDDi  226 (306)
T PRK08939        165 FGVGKSYLLAAIANELAKK--GVSSTLLHFP------EFIRELKNSISDG--------SVKEKIDAV--KEAPVLMLDDI  226 (306)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCCEEEEEHH------HHHHHHHHHHhcC--------cHHHHHHHh--cCCCEEEEecC
Confidence            5999999999999998743  2346666653      4555554444211        123344444  46778999999


Q ss_pred             CCc--ccchh--hccCC-CCC-CCCcEEEEecCC
Q 000869           82 WKR--VDLET--VGIPF-GDD-HRGCKLLLTARD  109 (1247)
Q Consensus        82 ~~~--~~~~~--l~~~~-~~~-~~~~~vliTtR~  109 (1247)
                      ...  ..|..  +.... ..+ ..+-.+|+||--
T Consensus       227 G~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        227 GAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             CCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            754  34432  22222 111 134457777753

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=92.38  E-value=0.42  Score=52.56  Aligned_cols=49  Identities=27%  Similarity=0.306  Sum_probs=34.1

Q ss_pred             CCccHHHHHHHHHHHhhhc----cCCCeEEEEEcCCccCHHHHHHHHHHHhCCC
Q 000869            2 GGIGKTTLVKEVARKARKD----KLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV   51 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~----~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~   51 (1247)
                      +|+|||++|.+++-.....    ..=..++||+....++...+. ++++.++.+
T Consensus       105 ~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~d  157 (313)
T TIGR02238       105 FRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGVD  157 (313)
T ss_pred             CCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCCC
Confidence            7999999999887543211    112469999999888777654 456666654

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=92.37  E-value=0.33  Score=58.39  Aligned_cols=162  Identities=10%  Similarity=0.143  Sum_probs=77.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEc---CCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh---------
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEV---SQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK---------   69 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~---~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~---------   69 (1247)
                      +|+||||+++.++....    ++..-|++.   ....+...+...++.++...   ....+....+..+..         
T Consensus       119 ~GsGKTTl~~~la~~l~----~~~~Ew~npv~~~~~~~~~~~~~s~~~~~~~~---~s~~~~F~~fl~~a~~~~~~~g~~  191 (637)
T TIGR00602       119 SGCGKSTTIKILSKELG----IQVQEWSNPTLPDFQKNDHKVTLSLESCFSNF---QSQIEVFSEFLLRATNKLQMLGDD  191 (637)
T ss_pred             CCCCHHHHHHHHHHHhh----hHHHHHhhhhhhcccccccccchhhhhccccc---cchHHHHHHHHHHHHhhhcccccc
Confidence            69999999999998764    333334221   11111111222222222221   112222222222211         


Q ss_pred             -cCCeEEEEEeCCCCcc-----cchhhcc-CCCCCCCCcEEEEecCChh---------hh------hhc---CCcceEEc
Q 000869           70 -REEKILIILDNIWKRV-----DLETVGI-PFGDDHRGCKLLLTARDRT---------VL------FSM---GSEKNFLV  124 (1247)
Q Consensus        70 -~~~~~LlvlDd~~~~~-----~~~~l~~-~~~~~~~~~~vliTtR~~~---------~~------~~~---~~~~~~~l  124 (1247)
                       .+++.+|++|+++...     .+..+.. .+...+.-.-|+|||.+..         ..      ..+   .....+..
T Consensus       192 ~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~pLI~I~TE~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~F  271 (637)
T TIGR00602       192 LMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFIITESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISF  271 (637)
T ss_pred             cCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCceEEEEecCCccccccccccccchhcccCHhHhcccceeEEEe
Confidence             2467899999995431     2333332 2222233334666663221         00      001   12346889


Q ss_pred             CCCCHHHHHHHHHHHhCCCC--C-C---hhhHHHHHHHHHHcCCC-chHHHHH
Q 000869          125 DILKEEEAWRLFKLMAGDDV--E-N---RELKSTATEVAKACKGL-PIALTTI  170 (1247)
Q Consensus       125 ~~l~~~ea~~l~~~~~~~~~--~-~---~~~~~~~~~i~~~~~g~-Plai~~~  170 (1247)
                      .+++..+-.+.+...+....  . .   ....+....|+...+|- --||..+
T Consensus       272 nPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~I~~~s~GDiRsAIn~L  324 (637)
T TIGR00602       272 NPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSGDIRSAINSL  324 (637)
T ss_pred             CCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHHHHHhCCChHHHHHHHH
Confidence            99999997777777763210  0 0   11235666777767664 3344333

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=92.34  E-value=0.52  Score=59.14  Aligned_cols=73  Identities=21%  Similarity=0.271  Sum_probs=41.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.+|+.+++..     +...+.++.++..+...+-    +.+|....-.. .+....+.+.++.....+++||++
T Consensus       493 ~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~~~----~lig~~~gyvg-~~~~~~l~~~~~~~p~~VvllDEi  562 (731)
T TIGR02639       493 TGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHTVS----RLIGAPPGYVG-FEQGGLLTEAVRKHPHCVLLLDEI  562 (731)
T ss_pred             CCccHHHHHHHHHHHh-----cCCeEEEeCchhhhcccHH----HHhcCCCCCcc-cchhhHHHHHHHhCCCeEEEEech
Confidence            6999999999999876     2445677765543322221    12222111000 111223344444466789999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       563 eka  565 (731)
T TIGR02639       563 EKA  565 (731)
T ss_pred             hhc
Confidence            875

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=92.34  E-value=0.63  Score=52.47  Aligned_cols=115  Identities=17%  Similarity=0.112  Sum_probs=67.6

Q ss_pred             CCccHHHHHHHHHHHhhhcc-------------------CCCeEEEEEcCCccC---HHHHHHHHHHHhCCCccccchHH
Q 000869            2 GGIGKTTLVKEVARKARKDK-------------------LFDRVVFSEVSQTID---IKKIQQAIAEKLGLVLQEETESS   59 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~-------------------~f~~~~w~~~~~~~~---~~~~~~~i~~~l~~~~~~~~~~~   59 (1247)
                      +|+||||+|.++++..-...                   ..+.+..+..+....   ..+.++++++.......      
T Consensus        33 ~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~~~~~i~~~~vr~~~~~~~~~~~------  106 (325)
T COG0470          33 PGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDLRKIDIIVEQVRELAEFLSESPL------  106 (325)
T ss_pred             CCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEecccccCCCcchHHHHHHHHHHhccCCC------
Confidence            59999999999999886432                   124566666655544   34445555544432221      


Q ss_pred             HHHHHHHHHhcCCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCChh-hhh-hcCCcceEEcCCCCHHHH
Q 000869           60 RASRLHEQLKREEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEEEA  132 (1247)
Q Consensus        60 ~~~~~~~~l~~~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~-~~~-~~~~~~~~~l~~l~~~ea  132 (1247)
                                .++.-++|+|+++..  +...++..........+++|++|.... +.. .......+++.+.+..+.
T Consensus       107 ----------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~SRc~~i~f~~~~~~~~  173 (325)
T COG0470         107 ----------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIRSRCQRIRFKPPSRLEA  173 (325)
T ss_pred             ----------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhhhcceeeecCCchHHHH
Confidence                      267889999999876  223444434444456777777776332 222 123455677766444333

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=92.29  E-value=0.38  Score=52.59  Aligned_cols=74  Identities=26%  Similarity=0.290  Sum_probs=46.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc------ccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ------EETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      +|+||||||.+++......  -..++||+.....+..     .+..++.+..      .....+....+......+..-+
T Consensus        64 ~GsGKTtLal~~~~~~~~~--g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li~s~~~~l  136 (325)
T cd00983          64 ESSGKTTLALHAIAEAQKL--GGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADSLVRSGAVDL  136 (325)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHHHHhccCCCE
Confidence            6999999999998776533  4678999987766643     3444544321      1112222233333334467789


Q ss_pred             EEEeCCC
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlDd~~   82 (1247)
                      +|+|.+.
T Consensus       137 IVIDSva  143 (325)
T cd00983         137 IVVDSVA  143 (325)
T ss_pred             EEEcchH
Confidence            9999975

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK07952 DNA replication protein DnaC; Validated

Probab=92.27  E-value=0.43  Score=50.22  Aligned_cols=67  Identities=19%  Similarity=0.276  Sum_probs=41.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++.....  -..|+++++      .++...+......  .    ......+.+.+.  ..=+||+||+
T Consensus       108 ~GtGKThLa~aia~~l~~~--g~~v~~it~------~~l~~~l~~~~~~--~----~~~~~~~l~~l~--~~dlLvIDDi  171 (244)
T PRK07952        108 PGTGKNHLAAAICNELLLR--GKSVLIITV------ADIMSAMKDTFSN--S----ETSEEQLLNDLS--NVDLLVIDEI  171 (244)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCeEEEEEH------HHHHHHHHHHHhh--c----cccHHHHHHHhc--cCCEEEEeCC
Confidence            6999999999999988743  356777754      4444444433321  0    111223445453  4558888999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      ...
T Consensus       172 g~~  174 (244)
T PRK07952        172 GVQ  174 (244)
T ss_pred             CCC
Confidence            765

>PRK04296 thymidine kinase; Provisional

Probab=92.24  E-value=0.14  Score=51.94  Aligned_cols=102  Identities=15%  Similarity=0.138  Sum_probs=56.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccc--c-chHHHHHHHHHHHhcCCeEEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE--E-TESSRASRLHEQLKREEKILIIL   78 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~--~-~~~~~~~~~~~~l~~~~~~Llvl   78 (1247)
                      .|.||||+|..++.+....  -..|+.+.  ...+.+.....++.+++...+.  . ...+....+.+  ..++.-+||+
T Consensus        11 ~GsGKTT~~l~~~~~~~~~--g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~~~~dvviI   84 (190)
T PRK04296         11 MNSGKSTELLQRAYNYEER--GMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EGEKIDCVLI   84 (190)
T ss_pred             CCCHHHHHHHHHHHHHHHc--CCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hCCCCCEEEE
Confidence            4999999999999988643  34555553  1112222234456666643332  1 11222222222  2245568999


Q ss_pred             eCCCCc--ccchhhccCCCCCCCCcEEEEecCChh
Q 000869           79 DNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT  111 (1247)
Q Consensus        79 Dd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~~  111 (1247)
                      |.++-.  +++..+...+  ...|..|++|.++..
T Consensus        85 DEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         85 DEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             EccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            999653  2233332221  235778999988854

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=92.13  E-value=0.091  Score=29.06  Aligned_cols=16  Identities=38%  Similarity=0.648  Sum_probs=6.0

Q ss_pred             CCcEEEccCCCCCcCc
Q 000869          417 NLEILSFSGSGIVKLP  432 (1247)
Q Consensus       417 ~L~~L~L~~~~i~~lp  432 (1247)
                      +|++|++++|.++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4455555555544443

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=92.04  E-value=0.86  Score=57.43  Aligned_cols=141  Identities=17%  Similarity=0.211  Sum_probs=78.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|+++++.....  |   +.+..+      +    +....     .......+..+++......+++|+||++
T Consensus       496 pGtGKT~lakalA~e~~~~--f---i~v~~~------~----l~~~~-----vGese~~i~~~f~~A~~~~p~iifiDEi  555 (733)
T TIGR01243       496 PGTGKTLLAKAVATESGAN--F---IAVRGP------E----ILSKW-----VGESEKAIREIFRKARQAAPAIIFFDEI  555 (733)
T ss_pred             CCCCHHHHHHHHHHhcCCC--E---EEEehH------H----Hhhcc-----cCcHHHHHHHHHHHHHhcCCEEEEEECh
Confidence            7999999999999886422  2   222211      1    11111     1112334566666666578899999999


Q ss_pred             CCcc--------------cchhhccCCCC--CCCCcEEEEecCChhhhh--hc---CCcceEEcCCCCHHHHHHHHHHHh
Q 000869           82 WKRV--------------DLETVGIPFGD--DHRGCKLLLTARDRTVLF--SM---GSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        82 ~~~~--------------~~~~l~~~~~~--~~~~~~vliTtR~~~~~~--~~---~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      +...              ....+...+..  ...+..||.||..+....  ..   +....+.++..+.++-.++|..+.
T Consensus       556 d~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~  635 (733)
T TIGR01243       556 DAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHT  635 (733)
T ss_pred             hhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHh
Confidence            7431              01112111111  123445666776655433  11   234678899999999999998777


Q ss_pred             CCCCCChhhHHHHHHHHHHcCCCc
Q 000869          141 GDDVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       141 ~~~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      .......+  .....+++.+.|.-
T Consensus       636 ~~~~~~~~--~~l~~la~~t~g~s  657 (733)
T TIGR01243       636 RSMPLAED--VDLEELAEMTEGYT  657 (733)
T ss_pred             cCCCCCcc--CCHHHHHHHcCCCC
Confidence            42221111  12456777777654

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.

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

Probab=91.97  E-value=1.4  Score=48.30  Aligned_cols=139  Identities=12%  Similarity=0.113  Sum_probs=74.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh-----cCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK-----REEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~-----~~~~~Ll   76 (1247)
                      +|.|||.+|++++.+....  |   +-++.++-.+.      .         ..+....+.++++...     ++++++|
T Consensus       157 PGcGKTllAraiA~elg~~--~---i~vsa~eL~sk------~---------vGEsEk~IR~~F~~A~~~a~~~~aPcVL  216 (413)
T PLN00020        157 KGQGKSFQCELVFKKMGIE--P---IVMSAGELESE------N---------AGEPGKLIRQRYREAADIIKKKGKMSCL  216 (413)
T ss_pred             CCCCHHHHHHHHHHHcCCC--e---EEEEHHHhhcC------c---------CCcHHHHHHHHHHHHHHHhhccCCCeEE
Confidence            7999999999999987532  2   33333221110      0         0111222233332221     3689999


Q ss_pred             EEeCCCCcc------c--c------hhhccC--------------CCCCCCCcEEEEecCChhhhh----hcCC-cceEE
Q 000869           77 ILDNIWKRV------D--L------ETVGIP--------------FGDDHRGCKLLLTARDRTVLF----SMGS-EKNFL  123 (1247)
Q Consensus        77 vlDd~~~~~------~--~------~~l~~~--------------~~~~~~~~~vliTtR~~~~~~----~~~~-~~~~~  123 (1247)
                      ++|++|...      +  .      ..+...              ......+-.||+||.+.....    +.+. ...  
T Consensus       217 FIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpGRfDk~--  294 (413)
T PLN00020        217 FINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDGRMEKF--  294 (413)
T ss_pred             EEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCCCCCce--
Confidence            999997531      0  0      111110              012234677888997666433    1111 122  


Q ss_pred             cCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCch
Q 000869          124 VDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       124 l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      +...+.++-.++++.+.......   .....++++...|-|+
T Consensus       295 i~lPd~e~R~eIL~~~~r~~~l~---~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        295 YWAPTREDRIGVVHGIFRDDGVS---REDVVKLVDTFPGQPL  333 (413)
T ss_pred             eCCCCHHHHHHHHHHHhccCCCC---HHHHHHHHHcCCCCCc
Confidence            34567788888888877543322   2456667777777664

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=91.92  E-value=1.9  Score=46.64  Aligned_cols=66  Identities=14%  Similarity=0.112  Sum_probs=37.6

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCCh-hhhh-hcCCcceEEcCCCCHHHHHHHHH
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      +++-++|+|+++..  +...++.-.+-.-..++.+|.+|.+. .+.. .......+.+.. +.++..+.+.
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            57789999999876  23344433333333445555555444 4443 224466777766 5565555554

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=91.89  E-value=0.63  Score=51.64  Aligned_cols=49  Identities=22%  Similarity=0.271  Sum_probs=34.5

Q ss_pred             CCccHHHHHHHHHHHhhh----ccCCCeEEEEEcCCccCHHHHHHHHHHHhCCC
Q 000869            2 GGIGKTTLVKEVARKARK----DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV   51 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~----~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~   51 (1247)
                      +|+|||+|+..++-....    ...-..++||+....+....+.+ +++.++.+
T Consensus       135 ~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        135 FRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            699999999998754332    11124799999998888776544 56666654

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=91.69  E-value=1.3  Score=56.52  Aligned_cols=76  Identities=24%  Similarity=0.320  Sum_probs=41.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||++|+.++......  -..++.++.+.......+    .+-+|.+..-.. .+....+...+......+|+||++
T Consensus       604 ~GvGKt~lA~~La~~l~~~--~~~~i~~d~s~~~~~~~~----~~l~g~~~g~~g-~~~~g~l~~~v~~~p~~vlllDei  676 (852)
T TIGR03346       604 TGVGKTELAKALAEFLFDD--EDAMVRIDMSEYMEKHSV----ARLIGAPPGYVG-YEEGGQLTEAVRRKPYSVVLFDEV  676 (852)
T ss_pred             CCCCHHHHHHHHHHHhcCC--CCcEEEEechhhcccchH----HHhcCCCCCccC-cccccHHHHHHHcCCCcEEEEecc
Confidence            6999999999999876432  245666666654332221    111222211000 001122333343355678999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       677 eka  679 (852)
T TIGR03346       677 EKA  679 (852)
T ss_pred             ccC
Confidence            875

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.

>PRK12377 putative replication protein; Provisional

Probab=91.67  E-value=0.53  Score=49.66  Aligned_cols=66  Identities=18%  Similarity=0.250  Sum_probs=41.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||.||.++++.....  ...|+++++.      ++...+.......       .....+.+.+  ...-|||+||+
T Consensus       110 ~GtGKThLa~AIa~~l~~~--g~~v~~i~~~------~l~~~l~~~~~~~-------~~~~~~l~~l--~~~dLLiIDDl  172 (248)
T PRK12377        110 PGTGKNHLAAAIGNRLLAK--GRSVIVVTVP------DVMSRLHESYDNG-------QSGEKFLQEL--CKVDLLVLDEI  172 (248)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCCeEEEEHH------HHHHHHHHHHhcc-------chHHHHHHHh--cCCCEEEEcCC
Confidence            6999999999999998743  4457777654      3444444333211       1112344444  47789999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      ...
T Consensus       173 g~~  175 (248)
T PRK12377        173 GIQ  175 (248)
T ss_pred             CCC
Confidence            543

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

Probab=91.53  E-value=1.1  Score=45.87  Aligned_cols=141  Identities=16%  Similarity=0.260  Sum_probs=83.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-+|+++++...+-     .+-|.         .-+-|.+.+|      +-..++.++.++.++..+|++.+|.+
T Consensus       160 pGTGKTm~Akalane~kvp-----~l~vk---------at~liGehVG------dgar~Ihely~rA~~~aPcivFiDE~  219 (368)
T COG1223         160 PGTGKTMMAKALANEAKVP-----LLLVK---------ATELIGEHVG------DGARRIHELYERARKAAPCIVFIDEL  219 (368)
T ss_pred             CCccHHHHHHHHhcccCCc-----eEEec---------hHHHHHHHhh------hHHHHHHHHHHHHHhcCCeEEEehhh
Confidence            7999999999999876532     12221         1122333333      24566777888887789999999998


Q ss_pred             CCc--------------ccchhhccCCCC--CCCCcEEEEecCChhhhhh-c--CCcceEEcCCCCHHHHHHHHHHHhCC
Q 000869           82 WKR--------------VDLETVGIPFGD--DHRGCKLLLTARDRTVLFS-M--GSEKNFLVDILKEEEAWRLFKLMAGD  142 (1247)
Q Consensus        82 ~~~--------------~~~~~l~~~~~~--~~~~~~vliTtR~~~~~~~-~--~~~~~~~l~~l~~~ea~~l~~~~~~~  142 (1247)
                      |..              +.+.++...+..  .+.|-..|-.|.++.++.. +  ....-++..--.++|-..++...+..
T Consensus       220 DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~  299 (368)
T COG1223         220 DAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKK  299 (368)
T ss_pred             hhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHh
Confidence            754              112333222211  2346666777776666541 1  22345555566788899999888842


Q ss_pred             CCCChhhHHHHHHHHHHcCCCc
Q 000869          143 DVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       143 ~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      ..-..+  ...+.++++.+|.-
T Consensus       300 ~Plpv~--~~~~~~~~~t~g~S  319 (368)
T COG1223         300 FPLPVD--ADLRYLAAKTKGMS  319 (368)
T ss_pred             CCCccc--cCHHHHHHHhCCCC
Confidence            221111  12556677776653

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=91.45  E-value=0.44  Score=53.75  Aligned_cols=77  Identities=22%  Similarity=0.343  Sum_probs=46.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcccc--chHHHHHHHHHHHhcCCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE--TESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      +|+||||++.+++......  -..++|++..+.  ... ++.-+.+++......  ......+.+.+.+...+.-++|+|
T Consensus        91 pG~GKStLllq~a~~~a~~--g~~VlYvs~EEs--~~q-i~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~~~lVVID  165 (372)
T cd01121          91 PGIGKSTLLLQVAARLAKR--GGKVLYVSGEES--PEQ-IKLRADRLGISTENLYLLAETNLEDILASIEELKPDLVIID  165 (372)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCeEEEEECCcC--HHH-HHHHHHHcCCCcccEEEEccCcHHHHHHHHHhcCCcEEEEc
Confidence            6999999999999887643  357889987543  222 233345666433211  111223445555544577788999


Q ss_pred             CCCC
Q 000869           80 NIWK   83 (1247)
Q Consensus        80 d~~~   83 (1247)
                      .+..
T Consensus       166 SIq~  169 (372)
T cd01121         166 SIQT  169 (372)
T ss_pred             chHH
Confidence            9753

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.

>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=91.43  E-value=0.1  Score=52.75  Aligned_cols=100  Identities=20%  Similarity=0.327  Sum_probs=49.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcC----Cc-----cCHHH----HHHHHHHHhCCCccccchHHHHHHHHHH-
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVS----QT-----IDIKK----IQQAIAEKLGLVLQEETESSRASRLHEQ-   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~----~~-----~~~~~----~~~~i~~~l~~~~~~~~~~~~~~~~~~~-   67 (1247)
                      +|.|||.||.+++-+.-..+.|+.++++.-.    +.     .+..+    ....+...+..-.    ..+..+.+.+. 
T Consensus        28 AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p~~d~l~~~~----~~~~~~~~~~~~  103 (205)
T PF02562_consen   28 AGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRPIYDALEELF----GKEKLEELIQNG  103 (205)
T ss_dssp             TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHHHHHHHTTTS-----TTCHHHHHHTT
T ss_pred             CCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHHHHHHHHHHh----ChHhHHHHhhcC
Confidence            7999999999999877666889999887421    11     11111    1111122221111    11111222211 


Q ss_pred             --------HhcC---CeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecC
Q 000869           68 --------LKRE---EKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTAR  108 (1247)
Q Consensus        68 --------l~~~---~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR  108 (1247)
                              ..+|   ....+|+|.+++.  +++..+...   .+.+||++++=-
T Consensus       104 ~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD  154 (205)
T PF02562_consen  104 KIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGD  154 (205)
T ss_dssp             SEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE-
T ss_pred             eEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecC
Confidence                    0012   4688999999876  455555443   467999999853

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK08118 topology modulation protein; Reviewed

Probab=91.41  E-value=0.11  Score=51.32  Aligned_cols=28  Identities=29%  Similarity=0.534  Sum_probs=22.0

Q ss_pred             CCCccHHHHHHHHHHHhhhc-cCCCeEEE
Q 000869            1 MGGIGKTTLVKEVARKARKD-KLFDRVVF   28 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~-~~f~~~~w   28 (1247)
                      .+|+||||+|+++++..... -.||.++|
T Consensus         9 ~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          9 SGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             CCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            48999999999999987643 34677776

>PRK10865 protein disaggregation chaperone; Provisional

Probab=91.37  E-value=1.5  Score=55.78  Aligned_cols=125  Identities=14%  Similarity=0.158  Sum_probs=66.9

Q ss_pred             CCccHHHHHHHHHHHhhhccC-----CCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh-cCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKL-----FDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK-REEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~-----f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~-~~~~~L   75 (1247)
                      +|+|||++|+.++.+...+.-     -..+++++++....            +.. ....-.+++..+.+.+. .+.+++
T Consensus       208 pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~l~a------------g~~-~~g~~e~~lk~~~~~~~~~~~~~I  274 (857)
T PRK10865        208 PGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVA------------GAK-YRGEFEERLKGVLNDLAKQEGNVI  274 (857)
T ss_pred             CCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhhhhh------------ccc-hhhhhHHHHHHHHHHHHHcCCCeE
Confidence            799999999999998753211     12344454433110            000 01112334444554443 257899


Q ss_pred             EEEeCCCCcc---------cchhhccCCCCCCCCcEEEEecCChhhh----h---hcCCcceEEcCCCCHHHHHHHHHHH
Q 000869           76 IILDNIWKRV---------DLETVGIPFGDDHRGCKLLLTARDRTVL----F---SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        76 lvlDd~~~~~---------~~~~l~~~~~~~~~~~~vliTtR~~~~~----~---~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      |++|+++...         +...+.-+....+ .-++|-+|-..+..    .   .......+.++..+.+++..+++..
T Consensus       275 LfIDEih~l~~~~~~~~~~d~~~~lkp~l~~g-~l~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l  353 (857)
T PRK10865        275 LFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGL  353 (857)
T ss_pred             EEEecHHHhccCCCCccchhHHHHhcchhhcC-CCeEEEcCCCHHHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHH
Confidence            9999997542         1222322333333 23344444333321    1   1123346778888999999988766


Q ss_pred             h
Q 000869          140 A  140 (1247)
Q Consensus       140 ~  140 (1247)
                      .
T Consensus       354 ~  354 (857)
T PRK10865        354 K  354 (857)
T ss_pred             h
Confidence            5

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=91.33  E-value=0.9  Score=47.96  Aligned_cols=37  Identities=24%  Similarity=0.317  Sum_probs=27.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCC------CeEEEEEcCCccCHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLF------DRVVFSEVSQTIDIKKI   40 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f------~~~~w~~~~~~~~~~~~   40 (1247)
                      +|.|||++|.+++......  -      ..++|++.....+...+
T Consensus        28 ~GsGKT~l~~~ia~~~~~~--~~~~g~~~~v~yi~~e~~~~~~rl   70 (226)
T cd01393          28 FGSGKTQLCLQLAVEAQLP--GELGGLEGKVVYIDTEGAFRPERL   70 (226)
T ss_pred             CCCChhHHHHHHHHHhhcc--cccCCCcceEEEEecCCCCCHHHH
Confidence            6999999999998765422  3      57899998776665443

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.

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

Probab=91.33  E-value=7.5  Score=40.38  Aligned_cols=19  Identities=32%  Similarity=0.511  Sum_probs=16.5

Q ss_pred             CCccHHHHHHHHHHHhhhc
Q 000869            2 GGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~   20 (1247)
                      .|.|||++++++.+....+
T Consensus        61 rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   61 RGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             CCCCHHHHHHHHHHHHhhc
Confidence            6999999999999887744

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=91.31  E-value=0.83  Score=48.15  Aligned_cols=35  Identities=23%  Similarity=0.413  Sum_probs=27.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKK   39 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~   39 (1247)
                      +|+|||++|.+++......  -..++|++.. ..+...
T Consensus        32 ~GsGKT~l~~~la~~~~~~--~~~v~yi~~e-~~~~~r   66 (225)
T PRK09361         32 PGSGKTNICLQLAVEAAKN--GKKVIYIDTE-GLSPER   66 (225)
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCeEEEEECC-CCCHHH
Confidence            7999999999999877533  5789999987 455443

>PRK07261 topology modulation protein; Provisional

Probab=91.30  E-value=0.68  Score=46.10  Aligned_cols=28  Identities=25%  Similarity=0.426  Sum_probs=19.1

Q ss_pred             CCCccHHHHHHHHHHHhhhc-cCCCeEEE
Q 000869            1 MGGIGKTTLVKEVARKARKD-KLFDRVVF   28 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~-~~f~~~~w   28 (1247)
                      ++|+||||+|++++...... -..|.+.|
T Consensus         8 ~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          8 YSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             CCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            48999999999998775321 12344555

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=91.17  E-value=0.16  Score=28.10  Aligned_cols=17  Identities=18%  Similarity=0.249  Sum_probs=7.9

Q ss_pred             CCcCeEEEcccCCccccC
Q 000869         1165 PSLEYLFVVGCPKMNIFT 1182 (1247)
Q Consensus      1165 ~sL~~L~i~~C~~l~~lp 1182 (1247)
                      ++|+.|++++|. ++++|
T Consensus         1 ~~L~~L~l~~n~-L~~lP   17 (17)
T PF13504_consen    1 PNLRTLDLSNNR-LTSLP   17 (17)
T ss_dssp             TT-SEEEETSS---SSE-
T ss_pred             CccCEEECCCCC-CCCCc
Confidence            356666666666 55554

...

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

Probab=91.15  E-value=1.3  Score=51.12  Aligned_cols=151  Identities=16%  Similarity=0.221  Sum_probs=85.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||.||++++.+..+-       ++.++.+        .|...+.     ....+.+.++++......+|++++|++
T Consensus       232 PGCGKT~lA~AiAgel~vP-------f~~isAp--------eivSGvS-----GESEkkiRelF~~A~~~aPcivFiDeI  291 (802)
T KOG0733|consen  232 PGCGKTSLANAIAGELGVP-------FLSISAP--------EIVSGVS-----GESEKKIRELFDQAKSNAPCIVFIDEI  291 (802)
T ss_pred             CCccHHHHHHHHhhhcCCc-------eEeecch--------hhhcccC-----cccHHHHHHHHHHHhccCCeEEEeecc
Confidence            7999999999999886543       3333221        1121221     224567788888888789999999999


Q ss_pred             CCcc--------c------------chhhccCCCCCCCCcEEEE-ecCChhhhh---hcCC-cceEEcCCCCHHHHHHHH
Q 000869           82 WKRV--------D------------LETVGIPFGDDHRGCKLLL-TARDRTVLF---SMGS-EKNFLVDILKEEEAWRLF  136 (1247)
Q Consensus        82 ~~~~--------~------------~~~l~~~~~~~~~~~~vli-TtR~~~~~~---~~~~-~~~~~l~~l~~~ea~~l~  136 (1247)
                      |...        +            ++.+... ...+.+.-||= |+|...+-.   +.+. ..-+.+.--++++-.+++
T Consensus       292 DAI~pkRe~aqreMErRiVaQLlt~mD~l~~~-~~~g~~VlVIgATnRPDslDpaLRRaGRFdrEI~l~vP~e~aR~~IL  370 (802)
T KOG0733|consen  292 DAITPKREEAQREMERRIVAQLLTSMDELSNE-KTKGDPVLVIGATNRPDSLDPALRRAGRFDREICLGVPSETAREEIL  370 (802)
T ss_pred             cccccchhhHHHHHHHHHHHHHHHhhhccccc-ccCCCCeEEEecCCCCcccCHHHhccccccceeeecCCchHHHHHHH
Confidence            8651        1            1122111 11123333333 445444322   2222 356778888888888888


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHHcCCCc----hHHHHHHHHHh
Q 000869          137 KLMAGDDVENRELKSTATEVAKACKGLP----IALTTIARALR  175 (1247)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~i~~~~~g~P----lai~~~a~~l~  175 (1247)
                      +..+..-.....  -...+|++..-|.-    .|+...|+..+
T Consensus       371 ~~~~~~lrl~g~--~d~~qlA~lTPGfVGADL~AL~~~Aa~vA  411 (802)
T KOG0733|consen  371 RIICRGLRLSGD--FDFKQLAKLTPGFVGADLMALCREAAFVA  411 (802)
T ss_pred             HHHHhhCCCCCC--cCHHHHHhcCCCccchhHHHHHHHHHHHH
Confidence            888721111111  13567777776653    45555555544

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=91.06  E-value=0.8  Score=51.30  Aligned_cols=81  Identities=17%  Similarity=0.226  Sum_probs=51.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      .|+||||++.+++.....+.....|..++.... ....+-++.+++.++.+...............++.  +.-++++|.
T Consensus       146 tGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~--~~DlVLIDT  223 (374)
T PRK14722        146 TGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR--NKHMVLIDT  223 (374)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc--CCCEEEEcC
Confidence            699999999999988653322346777775543 34556667777888876654443333444445553  346666898


Q ss_pred             CCCc
Q 000869           81 IWKR   84 (1247)
Q Consensus        81 ~~~~   84 (1247)
                      ..-.
T Consensus       224 aG~~  227 (374)
T PRK14722        224 IGMS  227 (374)
T ss_pred             CCCC
Confidence            8543

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=91.01  E-value=1.1  Score=49.72  Aligned_cols=69  Identities=12%  Similarity=0.072  Sum_probs=39.6

Q ss_pred             CCeEEEEEeCCCCcc--cchhhccCCCCCCCCcEEEEecCChh-hhhh-cCCcceEEcCCCCHHHHHHHHHHH
Q 000869           71 EEKILIILDNIWKRV--DLETVGIPFGDDHRGCKLLLTARDRT-VLFS-MGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~--~~~~l~~~~~~~~~~~~vliTtR~~~-~~~~-~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      +++-++|+|+++...  ....+...+.....+..+|++|.+.. +... ......+.+.+++.+++.+.+.+.
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            445555668887652  22222222222223455666666554 3322 244678889999999999888654

>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=90.91  E-value=0.9  Score=46.22  Aligned_cols=79  Identities=20%  Similarity=0.280  Sum_probs=49.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCC-ccCHHHHHHHHHHHhCCCcccc----chHHHHHHHHHHHhcCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ-TIDIKKIQQAIAEKLGLVLQEE----TESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~-~~~~~~~~~~i~~~l~~~~~~~----~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      .|+||||.+.+++.....+  -..|..++... .....+-++..++.++.+....    +..+...+..++...++.=++
T Consensus        10 tGvGKTTt~aKLAa~~~~~--~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~~~~~D~v   87 (196)
T PF00448_consen   10 TGVGKTTTIAKLAARLKLK--GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFRKKGYDLV   87 (196)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHHHTTSSEE
T ss_pred             CCCchHhHHHHHHHHHhhc--cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHhhcCCCEE
Confidence            6999999999999988754  45677787764 3446677788899998764322    233334333444432344466


Q ss_pred             EEeCCC
Q 000869           77 ILDNIW   82 (1247)
Q Consensus        77 vlDd~~   82 (1247)
                      ++|=..
T Consensus        88 lIDT~G   93 (196)
T PF00448_consen   88 LIDTAG   93 (196)
T ss_dssp             EEEE-S
T ss_pred             EEecCC
Confidence            667653

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 ....

>PRK10865 protein disaggregation chaperone; Provisional

Probab=90.65  E-value=1.9  Score=54.96  Aligned_cols=76  Identities=24%  Similarity=0.280  Sum_probs=39.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||++|+.+++.....  -...+.++.+.......    ..+-+|.+..-... +....+....+.....+|+||++
T Consensus       607 ~G~GKT~lA~aLa~~l~~~--~~~~i~id~se~~~~~~----~~~LiG~~pgy~g~-~~~g~l~~~v~~~p~~vLllDEi  679 (857)
T PRK10865        607 TGVGKTELCKALANFMFDS--DDAMVRIDMSEFMEKHS----VSRLVGAPPGYVGY-EEGGYLTEAVRRRPYSVILLDEV  679 (857)
T ss_pred             CCCCHHHHHHHHHHHhhcC--CCcEEEEEhHHhhhhhh----HHHHhCCCCccccc-chhHHHHHHHHhCCCCeEEEeeh
Confidence            6999999999999766422  23456666654322111    11122322111111 11112333333345579999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       680 eka  682 (857)
T PRK10865        680 EKA  682 (857)
T ss_pred             hhC
Confidence            854

>PRK06835 DNA replication protein DnaC; Validated

Probab=90.62  E-value=0.25  Score=54.57  Aligned_cols=93  Identities=15%  Similarity=0.186  Sum_probs=49.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||.||.++++....+  -..|+|+++..      +...+...-. .   .  ........+.+.  .-=|||+||+
T Consensus       192 ~GtGKThLa~aIa~~l~~~--g~~V~y~t~~~------l~~~l~~~~~-~---~--~~~~~~~~~~l~--~~DLLIIDDl  255 (329)
T PRK06835        192 TGTGKTFLSNCIAKELLDR--GKSVIYRTADE------LIEILREIRF-N---N--DKELEEVYDLLI--NCDLLIIDDL  255 (329)
T ss_pred             CCCcHHHHHHHHHHHHHHC--CCeEEEEEHHH------HHHHHHHHHh-c---c--chhHHHHHHHhc--cCCEEEEecc
Confidence            6999999999999988744  34678887544      3333322100 0   0  011111134442  3458999999


Q ss_pred             CCc--ccc--hhhccCCCCC-CCCcEEEEecCCh
Q 000869           82 WKR--VDL--ETVGIPFGDD-HRGCKLLLTARDR  110 (1247)
Q Consensus        82 ~~~--~~~--~~l~~~~~~~-~~~~~vliTtR~~  110 (1247)
                      ...  ..|  +.+...+-.. ..+..+||||...
T Consensus       256 G~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl~  289 (329)
T PRK06835        256 GTEKITEFSKSELFNLINKRLLRQKKMIISTNLS  289 (329)
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            654  122  1221111111 1244588888654

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=90.56  E-value=1.3  Score=54.56  Aligned_cols=140  Identities=19%  Similarity=0.239  Sum_probs=75.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|+.++.+....     .+.++.+..      ...   ..+.      ....+..+........+++|++|++
T Consensus       194 ~G~GKt~~~~~~a~~~~~~-----f~~is~~~~------~~~---~~g~------~~~~~~~~f~~a~~~~P~IifIDEi  253 (644)
T PRK10733        194 PGTGKTLLAKAIAGEAKVP-----FFTISGSDF------VEM---FVGV------GASRVRDMFEQAKKAAPCIIFIDEI  253 (644)
T ss_pred             CCCCHHHHHHHHHHHcCCC-----EEEEehHHh------HHh---hhcc------cHHHHHHHHHHHHhcCCcEEEehhH
Confidence            7999999999998876432     233333221      110   0111      1123333444444467899999999


Q ss_pred             CCccc----------------chhhccCCCC--CCCCcEEEEecCChhhhh-hc----CCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRVD----------------LETVGIPFGD--DHRGCKLLLTARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~~----------------~~~l~~~~~~--~~~~~~vliTtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      |....                +..+...+..  ...+.-||.||..+.... .+    .....+.++..+.++-.+++..
T Consensus       254 D~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~  333 (644)
T PRK10733        254 DAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKV  333 (644)
T ss_pred             hhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHH
Confidence            76410                1111111111  123445666887665433 11    2246788899999999999998


Q ss_pred             HhCCCCCChhhHHHHHHHHHHcCCC
Q 000869          139 MAGDDVENRELKSTATEVAKACKGL  163 (1247)
Q Consensus       139 ~~~~~~~~~~~~~~~~~i~~~~~g~  163 (1247)
                      +........+  .....+++.+.|.
T Consensus       334 ~~~~~~l~~~--~d~~~la~~t~G~  356 (644)
T PRK10733        334 HMRRVPLAPD--IDAAIIARGTPGF  356 (644)
T ss_pred             HhhcCCCCCc--CCHHHHHhhCCCC
Confidence            8853222111  1134466666653

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=90.52  E-value=1.1  Score=47.53  Aligned_cols=81  Identities=25%  Similarity=0.252  Sum_probs=45.9

Q ss_pred             CCCccHHHHHHHHHHHhhhcc----------CCCeEEEEEcCCccC-HHHHHHHHHHHhCCCcc----------------
Q 000869            1 MGGIGKTTLVKEVARKARKDK----------LFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQ----------------   53 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~----------~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~----------------   53 (1247)
                      .||+|||+||..++.......          .-..|++++.....+ +..-+..+...++....                
T Consensus         9 ~~G~GKS~lal~la~~va~G~~~~g~~~~~~~~~~Vlyi~~Ed~~~~i~~Rl~~i~~~~~~~~~~~rl~~~~g~~~~l~~   88 (239)
T cd01125           9 PGGTGKSSLLLVLALAMALGKNLFGGGLKVTEPGRVVYLSAEDPREEIHRRLEAILQHLEPDDAGDRLFIDSGRIQPISI   88 (239)
T ss_pred             CCCCCHHHHHHHHHHHHhcCccccCCccccCCCceEEEEECCCCHHHHHHHHHHHHhhcCCcCcccceEEeccCCCceec
Confidence            389999999999997654221          123477888766543 44444445544421110                


Q ss_pred             -c---cchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869           54 -E---ETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus        54 -~---~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                       .   ......++.+.+.+...+.-++|+|-+
T Consensus        89 ~~~~~~~~~~~~~~l~~~~~~~~~~lvviDpl  120 (239)
T cd01125          89 AREGRIIVVPEFERIIEQLLIRRIDLVVIDPL  120 (239)
T ss_pred             ccCCcccccHHHHHHHHHHHhcCCCEEEECCh
Confidence             0   011233444555444357789999975

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.

>PHA00729 NTP-binding motif containing protein

Probab=90.45  E-value=0.76  Score=47.20  Aligned_cols=17  Identities=47%  Similarity=0.505  Sum_probs=15.2

Q ss_pred             CCccHHHHHHHHHHHhh
Q 000869            2 GGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~   18 (1247)
                      +|+|||+||.+++++.-
T Consensus        26 pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         26 QGSGKTTYALKVARDVF   42 (226)
T ss_pred             CCCCHHHHHHHHHHHHH
Confidence            79999999999998753

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

Probab=90.43  E-value=1.6  Score=52.73  Aligned_cols=146  Identities=20%  Similarity=0.195  Sum_probs=90.7

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      .+|.|||-||+++|-+..+       =|++++...        +.+.+..     ....++..++...+...++.+.+|.
T Consensus       352 PPGTGKTLLAKAiAGEAgV-------PF~svSGSE--------FvE~~~g-----~~asrvr~lf~~ar~~aP~iifide  411 (774)
T KOG0731|consen  352 PPGTGKTLLAKAIAGEAGV-------PFFSVSGSE--------FVEMFVG-----VGASRVRDLFPLARKNAPSIIFIDE  411 (774)
T ss_pred             CCCCcHHHHHHHHhcccCC-------ceeeechHH--------HHHHhcc-----cchHHHHHHHHHhhccCCeEEEecc
Confidence            3799999999999976543       244444321        2222211     1245667777777778899999999


Q ss_pred             CCCccc-----------------chhhccCCCCCC--CCcEEEEecCChhhhh----hcC-CcceEEcCCCCHHHHHHHH
Q 000869           81 IWKRVD-----------------LETVGIPFGDDH--RGCKLLLTARDRTVLF----SMG-SEKNFLVDILKEEEAWRLF  136 (1247)
Q Consensus        81 ~~~~~~-----------------~~~l~~~~~~~~--~~~~vliTtR~~~~~~----~~~-~~~~~~l~~l~~~ea~~l~  136 (1247)
                      ++...-                 +.++....-...  .+--||-+|..+.+..    +.+ -...+.++.-+.....++|
T Consensus       412 ida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~  491 (774)
T KOG0731|consen  412 IDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASIL  491 (774)
T ss_pred             cccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHH
Confidence            875411                 112211111122  2333445777776654    222 2568888988999999999


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHHcCCCchHH
Q 000869          137 KLMAGDDVENRELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai  167 (1247)
                      ..++.......+..+.+. |+...-|.+-|.
T Consensus       492 ~~h~~~~~~~~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  492 KVHLRKKKLDDEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             HHHhhccCCCcchhhHHH-HHhcCCCCcHHH
Confidence            999965444445556666 999999988554

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=90.16  E-value=1.1  Score=45.84  Aligned_cols=33  Identities=30%  Similarity=0.492  Sum_probs=23.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCC--------CeEEEEEcCCc
Q 000869            2 GGIGKTTLVKEVARKARKDKLF--------DRVVFSEVSQT   34 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f--------~~~~w~~~~~~   34 (1247)
                      +|+|||+++..++.....+..|        ..|+|++....
T Consensus        41 ~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   41 PGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             STSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             CCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            7999999999999887653222        36899988766

>PRK05541 adenylylsulfate kinase; Provisional

Probab=90.02  E-value=0.73  Score=46.33  Aligned_cols=28  Identities=25%  Similarity=0.592  Sum_probs=22.7

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSE   30 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~   30 (1247)
                      +.|+||||+|++++......  +.++++++
T Consensus        15 ~~GsGKst~a~~l~~~l~~~--~~~~~~~~   42 (176)
T PRK05541         15 LAGSGKTTIAKALYERLKLK--YSNVIYLD   42 (176)
T ss_pred             CCCCCHHHHHHHHHHHHHHc--CCcEEEEe
Confidence            47999999999999988743  66777775

>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=89.91  E-value=1.4  Score=48.03  Aligned_cols=75  Identities=23%  Similarity=0.282  Sum_probs=43.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc------ccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ------EETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      .|+||||||.+++......  -..++||+.....+..     .+..+|.+..      .....+....+.+-++.+.--+
T Consensus        62 ~ssGKttLaL~~ia~~q~~--g~~~a~ID~e~~ld~~-----~a~~lGvdl~rllv~~P~~~E~al~~~e~lirsg~~~l  134 (322)
T PF00154_consen   62 ESSGKTTLALHAIAEAQKQ--GGICAFIDAEHALDPE-----YAESLGVDLDRLLVVQPDTGEQALWIAEQLIRSGAVDL  134 (322)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--T-EEEEEESSS---HH-----HHHHTT--GGGEEEEE-SSHHHHHHHHHHHHHTTSESE
T ss_pred             CCCchhhhHHHHHHhhhcc--cceeEEecCcccchhh-----HHHhcCccccceEEecCCcHHHHHHHHHHHhhcccccE
Confidence            5789999999999876533  4568999998776654     3344444332      1222233333334344566678


Q ss_pred             EEEeCCCC
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlDd~~~   83 (1247)
                      +|+|.|..
T Consensus       135 VVvDSv~a  142 (322)
T PF00154_consen  135 VVVDSVAA  142 (322)
T ss_dssp             EEEE-CTT
T ss_pred             EEEecCcc
Confidence            99999864

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 ....

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

Probab=89.79  E-value=1.4  Score=52.90  Aligned_cols=142  Identities=19%  Similarity=0.226  Sum_probs=78.3

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      .+|.|||.+|++++......  |-.+.     .. +..   ..         -.......+..++...++..++.|.+|.
T Consensus       284 pPGtGKT~lAkava~~~~~~--fi~v~-----~~-~l~---sk---------~vGesek~ir~~F~~A~~~~p~iiFiDE  343 (494)
T COG0464         284 PPGTGKTLLAKAVALESRSR--FISVK-----GS-ELL---SK---------WVGESEKNIRELFEKARKLAPSIIFIDE  343 (494)
T ss_pred             CCCCCHHHHHHHHHhhCCCe--EEEee-----CH-HHh---cc---------ccchHHHHHHHHHHHHHcCCCcEEEEEc
Confidence            47999999999999865422  32222     21 100   00         0112334455666666667899999999


Q ss_pred             CCCccc-------------chhhccCCC--CCCCCcEEEEecCChhhhhh--c---CCcceEEcCCCCHHHHHHHHHHHh
Q 000869           81 IWKRVD-------------LETVGIPFG--DDHRGCKLLLTARDRTVLFS--M---GSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        81 ~~~~~~-------------~~~l~~~~~--~~~~~~~vliTtR~~~~~~~--~---~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      ++....             ...+...+.  ....+..||-||-.+.....  .   .-...+.++.-+.++..+.|..+.
T Consensus       344 iDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~  423 (494)
T COG0464         344 IDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHL  423 (494)
T ss_pred             hhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHh
Confidence            976421             112222221  12234445556644443331  1   224588899999999999999999


Q ss_pred             CCCCCChhhHHHHHHHHHHcCC
Q 000869          141 GDDVENRELKSTATEVAKACKG  162 (1247)
Q Consensus       141 ~~~~~~~~~~~~~~~i~~~~~g  162 (1247)
                      .+.............+++...|
T Consensus       424 ~~~~~~~~~~~~~~~l~~~t~~  445 (494)
T COG0464         424 RDKKPPLAEDVDLEELAEITEG  445 (494)
T ss_pred             cccCCcchhhhhHHHHHHHhcC
Confidence            6433321112234444544444

>cd01394 radB RadB

Probab=89.75  E-value=1  Score=47.15  Aligned_cols=33  Identities=18%  Similarity=0.274  Sum_probs=25.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID   36 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~   36 (1247)
                      +|+||||+|.+++......  -..++|++......
T Consensus        28 ~GsGKT~l~~~~a~~~~~~--g~~v~yi~~e~~~~   60 (218)
T cd01394          28 PGTGKTNIAIQLAVETAGQ--GKKVAYIDTEGLSS   60 (218)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCeEEEEECCCCCH
Confidence            7999999999999877532  45788998765543

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=89.67  E-value=1  Score=50.01  Aligned_cols=49  Identities=20%  Similarity=0.264  Sum_probs=33.9

Q ss_pred             CCccHHHHHHHHHHHhhhc----cCCCeEEEEEcCCccCHHHHHHHHHHHhCCC
Q 000869            2 GGIGKTTLVKEVARKARKD----KLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV   51 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~----~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~   51 (1247)
                      +|+|||++|..++-.....    ..-..++||+....++...+ .++++.++..
T Consensus       132 ~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl-~qia~~~~~~  184 (342)
T PLN03186        132 FRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRL-IQIAERFGLN  184 (342)
T ss_pred             CCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHH-HHHHHHcCCC
Confidence            7999999999888543211    01136999999998877655 4566666654

>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=89.47  E-value=1.4  Score=44.20  Aligned_cols=81  Identities=22%  Similarity=0.283  Sum_probs=43.6

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCccc----cchHHHHHHHHHHHhcCCeEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQE----ETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      .+|+||||+++.++......  =..++.++..... ...+.+...+...+.+...    .+..+...+.......+..-+
T Consensus         8 ~~G~GKTt~~~~la~~~~~~--g~~v~~i~~D~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~   85 (173)
T cd03115           8 LQGVGKTTTAAKLALYLKKK--GKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAREENFDV   85 (173)
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCcEEEEEcCCCChHHHHHHHHhcccCCeEEEecCCCCCHHHHHHHHHHHHHhCCCCE
Confidence            47999999999999887643  2356667665432 2334444445555543221    122222222233233234445


Q ss_pred             EEEeCCCC
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlDd~~~   83 (1247)
                      +|+|-...
T Consensus        86 viiDt~g~   93 (173)
T cd03115          86 VIVDTAGR   93 (173)
T ss_pred             EEEECccc
Confidence            66887654

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.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=89.43  E-value=1.2  Score=49.30  Aligned_cols=49  Identities=24%  Similarity=0.257  Sum_probs=32.4

Q ss_pred             CCccHHHHHHHHHHHhhh----ccCCCeEEEEEcCCccCHHHHHHHHHHHhCCC
Q 000869            2 GGIGKTTLVKEVARKARK----DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV   51 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~----~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~   51 (1247)
                      +|+|||++|..++.....    ...-..++||+....++... +.++++.++..
T Consensus       105 ~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~R-l~~ia~~~~~~  157 (316)
T TIGR02239       105 FRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPER-LLAIAERYGLN  157 (316)
T ss_pred             CCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHH-HHHHHHHcCCC
Confidence            699999999998863321    11123689999888777664 44455665543

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=89.33  E-value=1.8  Score=42.67  Aligned_cols=33  Identities=30%  Similarity=0.450  Sum_probs=25.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID   36 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~   36 (1247)
                      +|+|||++|..++.....  .-..++|++......
T Consensus         8 ~G~GKT~l~~~i~~~~~~--~~~~v~~~~~e~~~~   40 (165)
T cd01120           8 TGSGKTTLALQLALNIAT--KGGKVVYVDIEEEIE   40 (165)
T ss_pred             CCCCHHHHHHHHHHHHHh--cCCEEEEEECCcchH
Confidence            699999999999988764  245688888765543

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=89.27  E-value=0.58  Score=59.54  Aligned_cols=76  Identities=20%  Similarity=0.284  Sum_probs=41.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      .|+|||++|+.+++..-..  -...+-++.+...+...+.+    -+|.+..-.. .+....+...++.....+++||++
T Consensus       548 ~GvGKt~lA~~LA~~l~~~--~~~~~~~d~s~~~~~~~~~~----l~g~~~gyvg-~~~~~~l~~~~~~~p~~VvllDei  620 (821)
T CHL00095        548 TGVGKTELTKALASYFFGS--EDAMIRLDMSEYMEKHTVSK----LIGSPPGYVG-YNEGGQLTEAVRKKPYTVVLFDEI  620 (821)
T ss_pred             CCCcHHHHHHHHHHHhcCC--ccceEEEEchhccccccHHH----hcCCCCcccC-cCccchHHHHHHhCCCeEEEECCh
Confidence            6999999999999876432  23455566554333222221    1222110000 011123344454456689999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       621 eka  623 (821)
T CHL00095        621 EKA  623 (821)
T ss_pred             hhC
Confidence            875

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=89.19  E-value=1.7  Score=48.40  Aligned_cols=48  Identities=27%  Similarity=0.389  Sum_probs=33.5

Q ss_pred             CCccHHHHHHHHHHHhhhcc----CCCeEEEEEcCCccCHHHHHHHHHHHhCC
Q 000869            2 GGIGKTTLVKEVARKARKDK----LFDRVVFSEVSQTIDIKKIQQAIAEKLGL   50 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~----~f~~~~w~~~~~~~~~~~~~~~i~~~l~~   50 (1247)
                      +|+|||++|.+++.......    .=..++||+....++...+. ++++.++.
T Consensus       104 ~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~gl  155 (310)
T TIGR02236       104 FGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARGL  155 (310)
T ss_pred             CCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcCC
Confidence            79999999999987754210    01379999998887776544 44555554

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.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=89.06  E-value=1.5  Score=47.80  Aligned_cols=78  Identities=19%  Similarity=0.285  Sum_probs=46.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+||||++..++.....+..-..|..++..... .....+...++.++.+.........+......+.  ..=++++|.
T Consensus       203 tGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~~~~~~~~l~~~l~~~~--~~d~vliDt  280 (282)
T TIGR03499       203 TGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVKVARDPKELRKALDRLR--DKDLILIDT  280 (282)
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCceeccCCHHHHHHHHHHcc--CCCEEEEeC
Confidence            6999999999999887643112467777776533 2233444556666665543333334444444443  345777775


Q ss_pred             C
Q 000869           81 I   81 (1247)
Q Consensus        81 ~   81 (1247)
                      .
T Consensus       281 ~  281 (282)
T TIGR03499       281 A  281 (282)
T ss_pred             C
Confidence            4

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

Probab=89.00  E-value=3  Score=49.71  Aligned_cols=139  Identities=17%  Similarity=0.203  Sum_probs=77.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-+|++||.+..-.       |+++..+.    +++...         ....+.+++++++.+...+|+|.||.+
T Consensus       714 PGTGKTLlAKAVATEcsL~-------FlSVKGPE----LLNMYV---------GqSE~NVR~VFerAR~A~PCVIFFDEL  773 (953)
T KOG0736|consen  714 PGTGKTLLAKAVATECSLN-------FLSVKGPE----LLNMYV---------GQSEENVREVFERARSAAPCVIFFDEL  773 (953)
T ss_pred             CCCchHHHHHHHHhhceee-------EEeecCHH----HHHHHh---------cchHHHHHHHHHHhhccCCeEEEeccc
Confidence            7999999999999886643       56665543    211111         224567888999998889999999999


Q ss_pred             CCcc-----------cchh----hc---cCCCC-CCCCcEEEEecCChhhhh----hcCC-cceEEcCCCCHHHHHH-HH
Q 000869           82 WKRV-----------DLET----VG---IPFGD-DHRGCKLLLTARDRTVLF----SMGS-EKNFLVDILKEEEAWR-LF  136 (1247)
Q Consensus        82 ~~~~-----------~~~~----l~---~~~~~-~~~~~~vliTtR~~~~~~----~~~~-~~~~~l~~l~~~ea~~-l~  136 (1247)
                      |...           .++.    +.   .-+.. ...+--||=.|-.+++..    +.+. ..-+-|++=++++... ++
T Consensus       774 DSlAP~RG~sGDSGGVMDRVVSQLLAELDgls~~~s~~VFViGATNRPDLLDpALLRPGRFDKLvyvG~~~d~esk~~vL  853 (953)
T KOG0736|consen  774 DSLAPNRGRSGDSGGVMDRVVSQLLAELDGLSDSSSQDVFVIGATNRPDLLDPALLRPGRFDKLVYVGPNEDAESKLRVL  853 (953)
T ss_pred             cccCccCCCCCCccccHHHHHHHHHHHhhcccCCCCCceEEEecCCCccccChhhcCCCccceeEEecCCccHHHHHHHH
Confidence            7641           1111    11   11121 223444666666665543    2232 3455566655555543 34


Q ss_pred             HHHhCCCCCChhhHHHHHHHHHHcCC
Q 000869          137 KLMAGDDVENRELKSTATEVAKACKG  162 (1247)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~i~~~~~g  162 (1247)
                      +.......-.++  ....+|+++|.-
T Consensus       854 ~AlTrkFkLded--VdL~eiAk~cp~  877 (953)
T KOG0736|consen  854 EALTRKFKLDED--VDLVEIAKKCPP  877 (953)
T ss_pred             HHHHHHccCCCC--cCHHHHHhhCCc
Confidence            433322111111  124567777754

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=88.98  E-value=0.017  Score=57.24  Aligned_cols=80  Identities=11%  Similarity=0.099  Sum_probs=38.6

Q ss_pred             CCCCcEEEccCCCCccCCcccccCCCCcEEEccCcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccC
Q 000869          370 MKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN  448 (1247)
Q Consensus       370 l~~Lr~L~Ls~~~i~~lp~~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~  448 (1247)
                      .+..++||++.|....+-.-|+.++.|..|+++.+.+... ..++.+..++++++..|+....|.+++.+++++++++.+
T Consensus        41 ~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n~~~~~p~s~~k~~~~k~~e~k~  120 (326)
T KOG0473|consen   41 FKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKNNHSQQPKSQKKEPHPKKNEQKK  120 (326)
T ss_pred             cceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhccchhhCCccccccCCcchhhhcc
Confidence            3344444444444443333344444444444444444332 344444445555555555555555555555555555555


Q ss_pred             C
Q 000869          449 C  449 (1247)
Q Consensus       449 ~  449 (1247)
                      +
T Consensus       121 ~  121 (326)
T KOG0473|consen  121 T  121 (326)
T ss_pred             C
Confidence            4

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=88.96  E-value=1.8  Score=45.86  Aligned_cols=38  Identities=8%  Similarity=0.193  Sum_probs=27.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQA   43 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~   43 (1247)
                      +|+|||++|.+++...-..  -+.++|++...  +..++.+.
T Consensus        30 pGsGKT~la~~~l~~~~~~--ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        30 PGTGKSIFSQQFLWNGLQM--GEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCcEEEEEeeC--CHHHHHHH
Confidence            7999999999988765422  46799998765  34444444

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.

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

Probab=88.86  E-value=2.9  Score=43.70  Aligned_cols=63  Identities=17%  Similarity=0.032  Sum_probs=44.1

Q ss_pred             EEEecCChhhhhhc--CCcceEEcCCCCHHHHHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchH
Q 000869          103 LLLTARDRTVLFSM--GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       103 vliTtR~~~~~~~~--~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      |=-|||.=.+...+  +...+.+++..+.+|-.+.+.+.+..-. ..-.++.+.+|+++..|-|-.
T Consensus       155 IGATTr~G~lt~PLrdRFGi~~rlefY~~~eL~~Iv~r~a~~l~-i~i~~~~a~eIA~rSRGTPRI  219 (332)
T COG2255         155 IGATTRAGMLTNPLRDRFGIIQRLEFYTVEELEEIVKRSAKILG-IEIDEEAALEIARRSRGTPRI  219 (332)
T ss_pred             eeeccccccccchhHHhcCCeeeeecCCHHHHHHHHHHHHHHhC-CCCChHHHHHHHHhccCCcHH
Confidence            33478765544322  3356788999999999999999884211 122357899999999999943

>PTZ00035 Rad51 protein; Provisional

Probab=88.58  E-value=2  Score=47.94  Aligned_cols=49  Identities=22%  Similarity=0.257  Sum_probs=32.3

Q ss_pred             CCccHHHHHHHHHHHhhh----ccCCCeEEEEEcCCccCHHHHHHHHHHHhCCC
Q 000869            2 GGIGKTTLVKEVARKARK----DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLV   51 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~----~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~   51 (1247)
                      +|+||||++..++-....    ...=..++||+....+.... +.++++.++..
T Consensus       127 ~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~er-i~~ia~~~g~~  179 (337)
T PTZ00035        127 FRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPER-IVQIAERFGLD  179 (337)
T ss_pred             CCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHH-HHHHHHHhCCC
Confidence            699999999998765431    11124578999887766655 44456665543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=88.39  E-value=0.5  Score=44.63  Aligned_cols=27  Identities=37%  Similarity=0.523  Sum_probs=21.4

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCe-EEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDR-VVF   28 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~-~~w   28 (1247)
                      |+|+||||+++++++..+.+. |.. .+|
T Consensus        13 ~PGvGKtTl~~ki~e~L~~~g-~kvgGf~   40 (179)
T COG1618          13 RPGVGKTTLVLKIAEKLREKG-YKVGGFI   40 (179)
T ss_pred             CCCccHHHHHHHHHHHHHhcC-ceeeeEE
Confidence            689999999999999998654 543 444

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=88.13  E-value=1.7  Score=44.83  Aligned_cols=77  Identities=22%  Similarity=0.436  Sum_probs=46.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCc-------cccchHHHH------HHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVL-------QEETESSRA------SRLHEQ   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~~~------~~~~~~   67 (1247)
                      +|+|||+|+.++++...    -+.++++-+++. ....++.+.+...-..+.       ..+....+.      ..+-++
T Consensus        24 ~g~GKt~Ll~~i~~~~~----~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~~a~t~AEy   99 (215)
T PF00006_consen   24 AGVGKTVLLQEIANNQD----ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPYTALTIAEY   99 (215)
T ss_dssp             TTSSHHHHHHHHHHHCT----TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHHHHHHHHHH
T ss_pred             cccccchhhHHHHhccc----ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhccchhhhHH
Confidence            69999999999999875    356688877754 556677776643311111       111111111      111222


Q ss_pred             Hh-cCCeEEEEEeCCC
Q 000869           68 LK-REEKILIILDNIW   82 (1247)
Q Consensus        68 l~-~~~~~LlvlDd~~   82 (1247)
                      ++ .++++|+|+||+-
T Consensus       100 frd~G~dVlli~Dslt  115 (215)
T PF00006_consen  100 FRDQGKDVLLIIDSLT  115 (215)
T ss_dssp             HHHTTSEEEEEEETHH
T ss_pred             HhhcCCceeehhhhhH
Confidence            22 4899999999984

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=88.09  E-value=1.6  Score=50.70  Aligned_cols=80  Identities=19%  Similarity=0.283  Sum_probs=47.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+||||++.+++.....+.....|..++..... ...+.++...+.++................+++.  ..-+||+|.
T Consensus       359 tGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~--~~DLVLIDT  436 (559)
T PRK12727        359 TGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR--DYKLVLIDT  436 (559)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc--cCCEEEecC
Confidence            6999999999999876543223457777654332 2333444445556655444333444445555553  456788888


Q ss_pred             CCC
Q 000869           81 IWK   83 (1247)
Q Consensus        81 ~~~   83 (1247)
                      ..-
T Consensus       437 aG~  439 (559)
T PRK12727        437 AGM  439 (559)
T ss_pred             CCc
Confidence            753

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=88.07  E-value=2.2  Score=47.49  Aligned_cols=48  Identities=27%  Similarity=0.401  Sum_probs=33.2

Q ss_pred             CCccHHHHHHHHHHHhhhccC----CCeEEEEEcCCccCHHHHHHHHHHHhCC
Q 000869            2 GGIGKTTLVKEVARKARKDKL----FDRVVFSEVSQTIDIKKIQQAIAEKLGL   50 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~----f~~~~w~~~~~~~~~~~~~~~i~~~l~~   50 (1247)
                      +|+|||++|.+++........    =..++||+....++...+. ++++.++.
T Consensus       111 ~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~-~~~~~~g~  162 (317)
T PRK04301        111 FGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIE-QMAEALGL  162 (317)
T ss_pred             CCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHH-HHHHHcCC
Confidence            799999999999876532111    1479999998877766544 44455543

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=88.07  E-value=3.1  Score=52.54  Aligned_cols=143  Identities=14%  Similarity=0.190  Sum_probs=74.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+++++.....     .+.++....      ...    .     .......+..+++......+.+|++|++
T Consensus       221 pGtGKT~laraia~~~~~~-----~i~i~~~~i------~~~----~-----~g~~~~~l~~lf~~a~~~~p~il~iDEi  280 (733)
T TIGR01243       221 PGTGKTLLAKAVANEAGAY-----FISINGPEI------MSK----Y-----YGESEERLREIFKEAEENAPSIIFIDEI  280 (733)
T ss_pred             CCCChHHHHHHHHHHhCCe-----EEEEecHHH------hcc----c-----ccHHHHHHHHHHHHHHhcCCcEEEeehh
Confidence            6999999999999876421     233332111      000    0     0112233445555555467789999998


Q ss_pred             CCcc--------c-----chhhccCCCC-CCCCcEEEE-ecCChhhhh-hc----CCcceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKRV--------D-----LETVGIPFGD-DHRGCKLLL-TARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~~--------~-----~~~l~~~~~~-~~~~~~vli-TtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      +...        .     ...+...+.. ...+..++| ||....-.. .+    .....+.++..+.++..+++..+..
T Consensus       281 d~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~  360 (733)
T TIGR01243       281 DAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTR  360 (733)
T ss_pred             hhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhc
Confidence            6531        0     1112111111 112333444 554432111 11    1235677888899999999987763


Q ss_pred             CCCCChhhHHHHHHHHHHcCCCchH
Q 000869          142 DDVENRELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       142 ~~~~~~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      ......  ......+++.+.|.--+
T Consensus       361 ~~~l~~--d~~l~~la~~t~G~~ga  383 (733)
T TIGR01243       361 NMPLAE--DVDLDKLAEVTHGFVGA  383 (733)
T ss_pred             CCCCcc--ccCHHHHHHhCCCCCHH
Confidence            221111  12356778888886543

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.

>PRK04328 hypothetical protein; Provisional

Probab=88.05  E-value=1.7  Score=46.35  Aligned_cols=31  Identities=13%  Similarity=0.200  Sum_probs=24.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      +|+|||++|.+++......  -+.++|++..+.
T Consensus        32 pGsGKT~l~~~fl~~~~~~--ge~~lyis~ee~   62 (249)
T PRK04328         32 PGTGKSIFSQQFLWNGLQM--GEPGVYVALEEH   62 (249)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCcEEEEEeeCC
Confidence            7999999999998775322  467899987663

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=87.96  E-value=2.2  Score=45.33  Aligned_cols=83  Identities=22%  Similarity=0.276  Sum_probs=49.0

Q ss_pred             CCccHHHHHHHHHHHhhh--ccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCcc-------ccchHHHH------HHHH
Q 000869            2 GGIGKTTLVKEVARKARK--DKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVLQ-------EETESSRA------SRLH   65 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~--~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~-------~~~~~~~~------~~~~   65 (1247)
                      +|+|||+|+..++++...  +..-+.++++-+++. .+..++.+.+...=.+...       .+....+.      ..+-
T Consensus        78 ~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a~~~a~aiA  157 (276)
T cd01135          78 SGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIITPRMALTTA  157 (276)
T ss_pred             CCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            689999999999887541  112467888888764 4566677766544222110       11111111      2223


Q ss_pred             HHHh--cCCeEEEEEeCCCCc
Q 000869           66 EQLK--REEKILIILDNIWKR   84 (1247)
Q Consensus        66 ~~l~--~~~~~LlvlDd~~~~   84 (1247)
                      ++++  .++++|+++||+-.-
T Consensus       158 Eyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         158 EYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHhccCCeEEEEEcChhHH
Confidence            3333  279999999998543

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=87.77  E-value=2.4  Score=44.52  Aligned_cols=39  Identities=13%  Similarity=0.137  Sum_probs=26.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAI   44 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i   44 (1247)
                      +|+||||+|.+++......  =..++|++...  +..++.+++
T Consensus        33 ~G~GKTtl~~~~~~~~~~~--g~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         33 ESTGKSILSQRLAYGFLQN--GYSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCcEEEEeCCC--CHHHHHHHH
Confidence            6999999998887766422  25678887443  345555554

>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily

Probab=87.77  E-value=0.31  Score=30.61  Aligned_cols=20  Identities=25%  Similarity=0.378  Sum_probs=14.3

Q ss_pred             ccCccEEEEccccCchhcch
Q 000869         1080 FWNLTSLEVSSCKKLINLVA 1099 (1247)
Q Consensus      1080 ~~~L~~L~i~~C~~l~~~~~ 1099 (1247)
                      +++|++|+|++|+++++...
T Consensus         1 c~~L~~L~l~~C~~itD~gl   20 (26)
T smart00367        1 CPNLRELDLSGCTNITDEGL   20 (26)
T ss_pred             CCCCCEeCCCCCCCcCHHHH
Confidence            45677888888888777643

>PRK13849 putative crown gall tumor protein VirC1; Provisional

Probab=87.77  E-value=2.1  Score=45.01  Aligned_cols=39  Identities=26%  Similarity=0.368  Sum_probs=30.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQ   42 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~   42 (1247)
                      ||+||||+|..++.....+  =..|.-++.....+......
T Consensus        11 GGvGKTT~a~nLA~~la~~--G~~VlliD~DpQ~s~~~w~~   49 (231)
T PRK13849         11 GGAGKTTALMGLCAALASD--GKRVALFEADENRPLTRWKE   49 (231)
T ss_pred             CCccHHHHHHHHHHHHHhC--CCcEEEEeCCCCCCHHHHHH
Confidence            8999999999999988754  23677888887777655443

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

Probab=87.65  E-value=1.8  Score=46.15  Aligned_cols=66  Identities=20%  Similarity=0.261  Sum_probs=41.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||-||.+++++.. + .--.|.++++      .++..++......       .....++.+.+  .+-=||||||+
T Consensus       114 ~G~GKThLa~Ai~~~l~-~-~g~sv~f~~~------~el~~~Lk~~~~~-------~~~~~~l~~~l--~~~dlLIiDDl  176 (254)
T COG1484         114 PGVGKTHLAIAIGNELL-K-AGISVLFITA------PDLLSKLKAAFDE-------GRLEEKLLREL--KKVDLLIIDDI  176 (254)
T ss_pred             CCCcHHHHHHHHHHHHH-H-cCCeEEEEEH------HHHHHHHHHHHhc-------CchHHHHHHHh--hcCCEEEEecc
Confidence            69999999999999998 3 2345777654      4455555544432       11112233333  35668999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      .-.
T Consensus       177 G~~  179 (254)
T COG1484         177 GYE  179 (254)
T ss_pred             cCc
Confidence            764

>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=87.61  E-value=2.1  Score=43.43  Aligned_cols=31  Identities=16%  Similarity=0.212  Sum_probs=23.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      +|+|||++|.+++......  =..++|++....
T Consensus         8 ~G~GKT~l~~~~~~~~~~~--g~~v~~~s~e~~   38 (187)
T cd01124           8 PGTGKTTFALQFLYAGLAR--GEPGLYVTLEES   38 (187)
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCcEEEEECCCC
Confidence            7999999999998876532  356889987543

A related protein is found in archaea.

>PRK11823 DNA repair protein RadA; Provisional

Probab=87.33  E-value=1.2  Score=52.08  Aligned_cols=76  Identities=25%  Similarity=0.381  Sum_probs=42.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcccc--chHHHHHHHHHHHhcCCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE--TESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      +|+|||||+.+++......  -..++|++..+..  ..+. .-++.++......  ......+.+.+.+...+.-++|+|
T Consensus        89 pG~GKTtL~lq~a~~~a~~--g~~vlYvs~Ees~--~qi~-~ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~~~lVVID  163 (446)
T PRK11823         89 PGIGKSTLLLQVAARLAAA--GGKVLYVSGEESA--SQIK-LRAERLGLPSDNLYLLAETNLEAILATIEEEKPDLVVID  163 (446)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCeEEEEEccccH--HHHH-HHHHHcCCChhcEEEeCCCCHHHHHHHHHhhCCCEEEEe
Confidence            6999999999999877532  3578999875432  3322 2255565432110  001112334444433455567777


Q ss_pred             CCC
Q 000869           80 NIW   82 (1247)
Q Consensus        80 d~~   82 (1247)
                      .+.
T Consensus       164 SIq  166 (446)
T PRK11823        164 SIQ  166 (446)
T ss_pred             chh
Confidence            764

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=87.29  E-value=1.1  Score=52.85  Aligned_cols=65  Identities=23%  Similarity=0.298  Sum_probs=47.3

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHH-hcCCeEEEEEe
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQL-KREEKILIILD   79 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l-~~~~~~LlvlD   79 (1247)
                      .+|+||||||.-+|++.-    | .|+=|++++..+...+-..|...+.....              + ..+++.-||+|
T Consensus       334 ppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~--------------l~adsrP~CLViD  394 (877)
T KOG1969|consen  334 PPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSV--------------LDADSRPVCLVID  394 (877)
T ss_pred             CCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhccc--------------cccCCCcceEEEe
Confidence            379999999999998632    3 68889999999988877777655432211              1 12578888999


Q ss_pred             CCCCc
Q 000869           80 NIWKR   84 (1247)
Q Consensus        80 d~~~~   84 (1247)
                      .+|..
T Consensus       395 EIDGa  399 (877)
T KOG1969|consen  395 EIDGA  399 (877)
T ss_pred             cccCC
Confidence            88765

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=87.27  E-value=2.7  Score=44.92  Aligned_cols=79  Identities=20%  Similarity=0.304  Sum_probs=45.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCC-CccccchHHHHHHHHHHHh---cCCeEEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGL-VLQEETESSRASRLHEQLK---REEKILII   77 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~-~~~~~~~~~~~~~~~~~l~---~~~~~Llv   77 (1247)
                      .|.||||+|.+++-.....  -..++||+....++...+.+-....+.. -.......+.+.++.+.+.   ..+--|+|
T Consensus        69 ~gsGKT~lal~~~~~aq~~--g~~a~fIDtE~~l~p~r~~~l~~~~~d~l~v~~~~~~e~q~~i~~~~~~~~~~~i~LvV  146 (279)
T COG0468          69 ESSGKTTLALQLVANAQKP--GGKAAFIDTEHALDPERAKQLGVDLLDNLLVSQPDTGEQQLEIAEKLARSGAEKIDLLV  146 (279)
T ss_pred             CCcchhhHHHHHHHHhhcC--CCeEEEEeCCCCCCHHHHHHHHHhhhcceeEecCCCHHHHHHHHHHHHHhccCCCCEEE
Confidence            5899999999988766533  4589999999888877544333321211 1111122222222222222   12367888


Q ss_pred             EeCCC
Q 000869           78 LDNIW   82 (1247)
Q Consensus        78 lDd~~   82 (1247)
                      +|.+-
T Consensus       147 VDSva  151 (279)
T COG0468         147 VDSVA  151 (279)
T ss_pred             EecCc
Confidence            88874

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=87.15  E-value=3  Score=46.46  Aligned_cols=80  Identities=20%  Similarity=0.179  Sum_probs=50.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCCccccchHHHHHHHHHHHhc-CCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQEETESSRASRLHEQLKR-EEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~-~~~~LlvlD   79 (1247)
                      .|+||||++..++......  -..|.++++..... ...-++..++.++.+.........+....+.+.. +..-++++|
T Consensus       215 tGvGKTTt~akLA~~l~~~--g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~~~D~VLID  292 (407)
T PRK12726        215 TGVGKTTTLVKLGWQLLKQ--NRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVNCVDHILID  292 (407)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcCCCCEEEEE
Confidence            5999999999999877533  34688888765543 3445666777777655433333334444444431 345677778


Q ss_pred             CCCC
Q 000869           80 NIWK   83 (1247)
Q Consensus        80 d~~~   83 (1247)
                      -...
T Consensus       293 TAGr  296 (407)
T PRK12726        293 TVGR  296 (407)
T ss_pred             CCCC
Confidence            7754

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=87.14  E-value=2.1  Score=49.43  Aligned_cols=79  Identities=18%  Similarity=0.176  Sum_probs=46.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+||||++.+++........-..|..++...... ....++..++.++.+................+  ...-++|+|.
T Consensus       230 tGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~--~~~DlVlIDt  307 (424)
T PRK05703        230 TGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL--RDCDVILIDT  307 (424)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh--CCCCEEEEeC
Confidence            79999999999988765112235688888765432 22334455666666554333333333333333  2457788897


Q ss_pred             CC
Q 000869           81 IW   82 (1247)
Q Consensus        81 ~~   82 (1247)
                      ..
T Consensus       308 ~G  309 (424)
T PRK05703        308 AG  309 (424)
T ss_pred             CC
Confidence            63

>TIGR00416 sms DNA repair protein RadA

Probab=86.92  E-value=1.6  Score=50.95  Aligned_cols=76  Identities=24%  Similarity=0.353  Sum_probs=42.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcccc--chHHHHHHHHHHHhcCCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE--TESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      +|+||||++.+++......  -..++|++..+.  ..++. .-+..++......  ........+...+.+.+.-++|+|
T Consensus       103 pGsGKTTL~lq~a~~~a~~--g~kvlYvs~EEs--~~qi~-~ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~~~~~vVID  177 (454)
T TIGR00416       103 PGIGKSTLLLQVACQLAKN--QMKVLYVSGEES--LQQIK-MRAIRLGLPEPNLYVLSETNWEQICANIEEENPQACVID  177 (454)
T ss_pred             CCCCHHHHHHHHHHHHHhc--CCcEEEEECcCC--HHHHH-HHHHHcCCChHHeEEcCCCCHHHHHHHHHhcCCcEEEEe
Confidence            6999999999998876543  246889987643  22222 2234455432110  001112334444443455667777


Q ss_pred             CCC
Q 000869           80 NIW   82 (1247)
Q Consensus        80 d~~   82 (1247)
                      .+.
T Consensus       178 SIq  180 (454)
T TIGR00416       178 SIQ  180 (454)
T ss_pred             cch
Confidence            764

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)).

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=86.44  E-value=2.1  Score=52.62  Aligned_cols=74  Identities=18%  Similarity=0.230  Sum_probs=47.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc------ccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ------EETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      +|+||||||.+++......  =..++||+.....+.     ..++++|.+..      ..........+...+..+.--+
T Consensus        69 ~GsGKTtLal~~~~~a~~~--G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv~~~~~~L  141 (790)
T PRK09519         69 ESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDI  141 (790)
T ss_pred             CCCCHHHHHHHHHHHHHHc--CCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHHHhhcCCCeE
Confidence            6999999999987655432  367899998877763     36677776432      1122222233333344467788


Q ss_pred             EEEeCCC
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlDd~~   82 (1247)
                      +|+|.+.
T Consensus       142 VVIDSI~  148 (790)
T PRK09519        142 VVIDSVA  148 (790)
T ss_pred             EEEcchh
Confidence            9999975

>PHA02518 ParA-like protein; Provisional

Probab=86.32  E-value=2.3  Score=44.30  Aligned_cols=38  Identities=24%  Similarity=0.317  Sum_probs=29.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQ   41 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~   41 (1247)
                      ||+||||+|..++......  =..|.-|++....+.....
T Consensus        10 GGvGKTT~a~~la~~la~~--g~~vlliD~D~q~~~~~~~   47 (211)
T PHA02518         10 GGAGKTTVATNLASWLHAD--GHKVLLVDLDPQGSSTDWA   47 (211)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCeEEEEeCCCCCChHHHH
Confidence            8999999999999888743  2468888888776655543

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

Probab=86.22  E-value=14  Score=41.84  Aligned_cols=143  Identities=14%  Similarity=0.140  Sum_probs=75.8

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      .+|.|||+++.++|+...    |+. +=+.+....+..+ ++.++..                      ...+.+||+.|
T Consensus       243 PPGTGKSS~IaAmAn~L~----ydI-ydLeLt~v~~n~d-Lr~LL~~----------------------t~~kSIivIED  294 (457)
T KOG0743|consen  243 PPGTGKSSFIAAMANYLN----YDI-YDLELTEVKLDSD-LRHLLLA----------------------TPNKSILLIED  294 (457)
T ss_pred             CCCCCHHHHHHHHHhhcC----Cce-EEeeeccccCcHH-HHHHHHh----------------------CCCCcEEEEee
Confidence            389999999999998866    432 3234443333332 2222211                      25777777777


Q ss_pred             CCCcccc-----------h------------hhccCCCCCCCCcEEEE-ecCChhhhh----hcCC-cceEEcCCCCHHH
Q 000869           81 IWKRVDL-----------E------------TVGIPFGDDHRGCKLLL-TARDRTVLF----SMGS-EKNFLVDILKEEE  131 (1247)
Q Consensus        81 ~~~~~~~-----------~------------~l~~~~~~~~~~~~vli-TtR~~~~~~----~~~~-~~~~~l~~l~~~e  131 (1247)
                      +|-.-+.           +            .+..-+...+.+-|||| ||-..+-..    +.|. ...+.++-=+...
T Consensus       295 IDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~  374 (457)
T KOG0743|consen  295 IDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEA  374 (457)
T ss_pred             cccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHH
Confidence            7643110           0            01111111222445555 775554433    2122 2356677778888


Q ss_pred             HHHHHHHHhCCCCCChhhHHHHHHHHHHcCCCchHHHHHHHHHh
Q 000869          132 AWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALR  175 (1247)
Q Consensus       132 a~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~l~  175 (1247)
                      -..|+..+.+...+    ...+.+|.+...+.-+.=..+|..+-
T Consensus       375 fK~La~nYL~~~~~----h~L~~eie~l~~~~~~tPA~V~e~lm  414 (457)
T KOG0743|consen  375 FKTLASNYLGIEED----HRLFDEIERLIEETEVTPAQVAEELM  414 (457)
T ss_pred             HHHHHHHhcCCCCC----cchhHHHHHHhhcCccCHHHHHHHHh
Confidence            88888888864332    23445555555555444445555443

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=86.17  E-value=2.7  Score=47.67  Aligned_cols=80  Identities=19%  Similarity=0.178  Sum_probs=48.5

Q ss_pred             CCccHHHHHHHHHHHhhhc--cCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEE
Q 000869            2 GGIGKTTLVKEVARKARKD--KLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIIL   78 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~--~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Llvl   78 (1247)
                      .|+||||.+..++......  ..-..|..+++.... ....-++..++.++.+................+  ...-++|+
T Consensus       183 tGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~--~~~DlVLI  260 (388)
T PRK12723        183 TGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS--KDFDLVLV  260 (388)
T ss_pred             CCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh--CCCCEEEE
Confidence            6999999999999877532  122456667665432 233346666777777654433333333333333  35568888


Q ss_pred             eCCCC
Q 000869           79 DNIWK   83 (1247)
Q Consensus        79 Dd~~~   83 (1247)
                      |-+..
T Consensus       261 DTaGr  265 (388)
T PRK12723        261 DTIGK  265 (388)
T ss_pred             cCCCC
Confidence            98754

>smart00370 LRR Leucine-rich repeats, outliers

Probab=86.08  E-value=0.67  Score=29.03  Aligned_cols=19  Identities=32%  Similarity=0.459  Sum_probs=11.4

Q ss_pred             CCCcEEEccCCCCCcCchh
Q 000869          416 KNLEILSFSGSGIVKLPEE  434 (1247)
Q Consensus       416 ~~L~~L~L~~~~i~~lp~~  434 (1247)
                      .+|++|+|++|.|+.+|..
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00370        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4566666666666666544

>smart00369 LRR_TYP Leucine-rich repeats, typical (most populated) subfamily

Probab=86.08  E-value=0.67  Score=29.03  Aligned_cols=19  Identities=32%  Similarity=0.459  Sum_probs=11.4

Q ss_pred             CCCcEEEccCCCCCcCchh
Q 000869          416 KNLEILSFSGSGIVKLPEE  434 (1247)
Q Consensus       416 ~~L~~L~L~~~~i~~lp~~  434 (1247)
                      .+|++|+|++|.|+.+|..
T Consensus         2 ~~L~~L~L~~N~l~~lp~~   20 (26)
T smart00369        2 PNLRELDLSNNQLSSLPPG   20 (26)
T ss_pred             CCCCEEECCCCcCCcCCHH
Confidence            4566666666666666544

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=85.98  E-value=3.4  Score=46.15  Aligned_cols=80  Identities=19%  Similarity=0.228  Sum_probs=45.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhc-CCeEEEEEe
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKR-EEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~-~~~~LlvlD   79 (1247)
                      +|+||||++.+++...... . ..|..++..... ...+-++..++.++.+.........+......+.. ...=++++|
T Consensus       250 tGvGKTTTiaKLA~~L~~~-G-kkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~~DvVLID  327 (436)
T PRK11889        250 TGVGKTTTLAKMAWQFHGK-K-KTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARVDYILID  327 (436)
T ss_pred             CCCcHHHHHHHHHHHHHHc-C-CcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccCCCEEEEe
Confidence            7999999999999887633 2 356667765433 22333444555666555433333333334444432 123566778


Q ss_pred             CCCC
Q 000869           80 NIWK   83 (1247)
Q Consensus        80 d~~~   83 (1247)
                      -...
T Consensus       328 TaGR  331 (436)
T PRK11889        328 TAGK  331 (436)
T ss_pred             Cccc
Confidence            7654

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=85.92  E-value=2.4  Score=47.99  Aligned_cols=76  Identities=21%  Similarity=0.230  Sum_probs=42.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      +|+||||+|.+++........ ..|..++...... ....++..++.++.+.....   ....+...+.....-++|+|-
T Consensus       232 tGvGKTTtaaKLA~~~~~~~G-~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~---~~~~l~~~l~~~~~D~VLIDT  307 (432)
T PRK12724        232 TGSGKTTSIAKLAAKYFLHMG-KSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVK---DIKKFKETLARDGSELILIDT  307 (432)
T ss_pred             CCCCHHHHHHHHHHHHHHhcC-CeEEEecccchhhhHHHHHHHHHHhcCCCeeehH---HHHHHHHHHHhCCCCEEEEeC
Confidence            799999999999976532211 2455565544332 33445555666666543221   233444444433445588884


Q ss_pred             C
Q 000869           81 I   81 (1247)
Q Consensus        81 ~   81 (1247)
                      .
T Consensus       308 a  308 (432)
T PRK12724        308 A  308 (432)
T ss_pred             C
Confidence            3

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=85.78  E-value=2.5  Score=41.81  Aligned_cols=74  Identities=16%  Similarity=0.185  Sum_probs=40.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcC-CeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKRE-EKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~-~~~LlvlDd   80 (1247)
                      +|.|||++|.+++..     ....++|+.-....+.+ +.+.|.+--......-...+....+.+.+.+. +.-.+++|.
T Consensus         8 ~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~~VLIDc   81 (169)
T cd00544           8 ARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDE-MAERIARHRKRRPAHWRTIETPRDLVSALKELDPGDVVLIDC   81 (169)
T ss_pred             CCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCCEEEEEc
Confidence            589999999999875     13578888777766554 44444321111111111222223333333221 334788898


Q ss_pred             C
Q 000869           81 I   81 (1247)
Q Consensus        81 ~   81 (1247)
                      +
T Consensus        82 l   82 (169)
T cd00544          82 L   82 (169)
T ss_pred             H
Confidence            6

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.

>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=85.76  E-value=0.98  Score=43.49  Aligned_cols=30  Identities=27%  Similarity=0.329  Sum_probs=24.0

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVS   32 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~   32 (1247)
                      ++|.||||||+++.+.+...  -..+++++..
T Consensus        10 lsGsGKtTlA~~L~~~L~~~--g~~~~~LDgD   39 (156)
T PF01583_consen   10 LSGSGKTTLARALERRLFAR--GIKVYLLDGD   39 (156)
T ss_dssp             STTSSHHHHHHHHHHHHHHT--TS-EEEEEHH
T ss_pred             CCCCCHHHHHHHHHHHHHHc--CCcEEEecCc
Confidence            47999999999999999855  5678888743

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 ....

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=85.72  E-value=2  Score=46.09  Aligned_cols=105  Identities=19%  Similarity=0.235  Sum_probs=57.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc---cCHHHHHHHHH--HH--hCCCccccchHHHHHHHHHHHhcCCeE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT---IDIKKIQQAIA--EK--LGLVLQEETESSRASRLHEQLKREEKI   74 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~---~~~~~~~~~i~--~~--l~~~~~~~~~~~~~~~~~~~l~~~~~~   74 (1247)
                      .|.||||+.+.++......   .+-++++-...   .+..++...+.  .+  ++......+.......+...++.-.+-
T Consensus       120 ~g~GKttl~~~l~~~~~~~---~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~~~~i~~~~P~  196 (270)
T TIGR02858       120 PQCGKTTLLRDLARILSTG---ISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGMMMLIRSMSPD  196 (270)
T ss_pred             CCCCHHHHHHHHhCccCCC---CceEEECCEEeecchhHHHHHHHhcccccccccccccccccchHHHHHHHHHHhCCCC
Confidence            6999999999999776532   34455432221   11222222111  11  111111111222233344444445788


Q ss_pred             EEEEeCCCCcccchhhccCCCCCCCCcEEEEecCChhh
Q 000869           75 LIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTV  112 (1247)
Q Consensus        75 LlvlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR~~~~  112 (1247)
                      ++|+|.+...+.+.++...+.   .|..||+||-+..+
T Consensus       197 villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~  231 (270)
T TIGR02858       197 VIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDV  231 (270)
T ss_pred             EEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHH
Confidence            999999987766666544432   47779999976655

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.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=85.66  E-value=3.1  Score=44.66  Aligned_cols=32  Identities=22%  Similarity=0.303  Sum_probs=24.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI   35 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~   35 (1247)
                      +|+|||++|.+++......  =..++|++...+.
T Consensus        45 pGtGKT~l~~qf~~~~a~~--Ge~vlyis~Ee~~   76 (259)
T TIGR03878        45 SDTGKSLMVEQFAVTQASR--GNPVLFVTVESPA   76 (259)
T ss_pred             CCCCHHHHHHHHHHHHHhC--CCcEEEEEecCCc
Confidence            7999999999998765422  3578899887533

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=85.60  E-value=1.9  Score=42.55  Aligned_cols=20  Identities=45%  Similarity=0.709  Sum_probs=17.6

Q ss_pred             CCCccHHHHHHHHHHHhhhc
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      .+|+||||+|++.++..+..
T Consensus         9 yPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           9 YPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             CCCCCchHHHHHHHHHHHHh
Confidence            48999999999999998854

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=85.48  E-value=3.2  Score=47.92  Aligned_cols=81  Identities=26%  Similarity=0.389  Sum_probs=49.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCc-------cccchHHHH------HHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVL-------QEETESSRA------SRLHEQ   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~~~------~~~~~~   67 (1247)
                      +|+|||+|+.++++..... +-+.++++-+++. ....++...+...-++..       .......+.      ..+-++
T Consensus       152 ~G~GKt~Ll~~~~~~~~~~-~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~~a~tiAEy  230 (461)
T PRK12597        152 AGVGKTVLMMELIFNISKQ-HSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLTGLTIAEY  230 (461)
T ss_pred             CCCChhHHHHHHHHHHHhh-CCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHHHHHHHHHH
Confidence            6999999999999887643 4577778777654 556667666654322111       011111111      223333


Q ss_pred             Hh--cCCeEEEEEeCCCC
Q 000869           68 LK--REEKILIILDNIWK   83 (1247)
Q Consensus        68 l~--~~~~~LlvlDd~~~   83 (1247)
                      ++  .++++|+++|++-.
T Consensus       231 frd~~G~~VLl~~DslTR  248 (461)
T PRK12597        231 LRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHhcCCceEEEeccchH
Confidence            33  27999999999854

>TIGR00763 lon ATP-dependent protease La

Probab=85.40  E-value=3.5  Score=52.27  Aligned_cols=127  Identities=20%  Similarity=0.178  Sum_probs=60.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+.+++.....  |   +-++++...+..++...-....|.      ....+.+...... ..+-+++||.+
T Consensus       356 pG~GKT~lAk~iA~~l~~~--~---~~i~~~~~~~~~~i~g~~~~~~g~------~~g~i~~~l~~~~-~~~~villDEi  423 (775)
T TIGR00763       356 PGVGKTSLGKSIAKALNRK--F---VRFSLGGVRDEAEIRGHRRTYVGA------MPGRIIQGLKKAK-TKNPLFLLDEI  423 (775)
T ss_pred             CCCCHHHHHHHHHHHhcCC--e---EEEeCCCcccHHHHcCCCCceeCC------CCchHHHHHHHhC-cCCCEEEEech
Confidence            7999999999999987522  3   223333333332221100000010      1111112222222 23347889999


Q ss_pred             CCccc------chhhccCC--------CCC-------CCCcEEEEecCChhhhh--hcCCcceEEcCCCCHHHHHHHHHH
Q 000869           82 WKRVD------LETVGIPF--------GDD-------HRGCKLLLTARDRTVLF--SMGSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        82 ~~~~~------~~~l~~~~--------~~~-------~~~~~vliTtR~~~~~~--~~~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +....      ..++...+        ...       ..+..+|.||.......  .......+++.+++.++-.+++..
T Consensus       424 dk~~~~~~~~~~~aLl~~ld~~~~~~f~d~~~~~~~d~s~v~~I~TtN~~~~i~~~L~~R~~vi~~~~~~~~e~~~I~~~  503 (775)
T TIGR00763       424 DKIGSSFRGDPASALLEVLDPEQNNAFSDHYLDVPFDLSKVIFIATANSIDTIPRPLLDRMEVIELSGYTEEEKLEIAKK  503 (775)
T ss_pred             hhcCCccCCCHHHHHHHhcCHHhcCccccccCCceeccCCEEEEEecCCchhCCHHHhCCeeEEecCCCCHHHHHHHHHH
Confidence            87521      01111111        110       02333444554332111  223445888999999888888876


Q ss_pred             Hh
Q 000869          139 MA  140 (1247)
Q Consensus       139 ~~  140 (1247)
                      +.
T Consensus       504 ~l  505 (775)
T TIGR00763       504 YL  505 (775)
T ss_pred             HH
Confidence            54

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.

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

Probab=85.20  E-value=14  Score=37.73  Aligned_cols=153  Identities=20%  Similarity=0.196  Sum_probs=83.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-||++||+...       +-||.++...   -+++-|.+          -...+.+++--.+...+.++..|.+
T Consensus       190 pgtGktLlaraVahht~-------c~firvsgse---lvqk~ige----------gsrmvrelfvmarehapsiifmdei  249 (404)
T KOG0728|consen  190 PGTGKTLLARAVAHHTD-------CTFIRVSGSE---LVQKYIGE----------GSRMVRELFVMAREHAPSIIFMDEI  249 (404)
T ss_pred             CCCchhHHHHHHHhhcc-------eEEEEechHH---HHHHHhhh----------hHHHHHHHHHHHHhcCCceEeeecc
Confidence            69999999999998644       3356665432   22332221          1233445555454456777777888


Q ss_pred             CCccc-----------------chhhccCCCC--CCCCcEEEEecCChhhhh----hc-CCcceEEcCCCCHHHHHHHHH
Q 000869           82 WKRVD-----------------LETVGIPFGD--DHRGCKLLLTARDRTVLF----SM-GSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        82 ~~~~~-----------------~~~l~~~~~~--~~~~~~vliTtR~~~~~~----~~-~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      +....                 ++-+ ..+..  ....-+||..|..-++..    +. .....++.++-+++...++++
T Consensus       250 dsigs~r~e~~~ggdsevqrtmlell-nqldgfeatknikvimatnridild~allrpgridrkiefp~p~e~ar~~ilk  328 (404)
T KOG0728|consen  250 DSIGSSRVESGSGGDSEVQRTMLELL-NQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILK  328 (404)
T ss_pred             cccccccccCCCCccHHHHHHHHHHH-HhccccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHH
Confidence            75410                 1111 11111  234667888886666544    11 234577888888888888887


Q ss_pred             HHhCCCCC--ChhhHHHHHHHHHHcCCCchHHHHHHHHHh
Q 000869          138 LMAGDDVE--NRELKSTATEVAKACKGLPIALTTIARALR  175 (1247)
Q Consensus       138 ~~~~~~~~--~~~~~~~~~~i~~~~~g~Plai~~~a~~l~  175 (1247)
                      -+...-+.  ..+++.+|.++.-..|.--.+++.-|++.+
T Consensus       329 ihsrkmnl~rgi~l~kiaekm~gasgaevk~vcteagm~a  368 (404)
T KOG0728|consen  329 IHSRKMNLTRGINLRKIAEKMPGASGAEVKGVCTEAGMYA  368 (404)
T ss_pred             HhhhhhchhcccCHHHHHHhCCCCccchhhhhhhhhhHHH
Confidence            77632121  223333333333322333455666666653

>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=85.03  E-value=0.64  Score=43.23  Aligned_cols=17  Identities=47%  Similarity=0.620  Sum_probs=15.3

Q ss_pred             CCCccHHHHHHHHHHHh
Q 000869            1 MGGIGKTTLVKEVARKA   17 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~   17 (1247)
                      .+|+||||+|+++++..
T Consensus         7 ~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    7 PPGSGKSTLAKELAERL   23 (121)
T ss_dssp             STTSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            47999999999999875

...

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=84.98  E-value=8.8  Score=41.43  Aligned_cols=57  Identities=7%  Similarity=0.024  Sum_probs=30.9

Q ss_pred             CCeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCC-hhhhhh-cCCcceEEcCCC
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARD-RTVLFS-MGSEKNFLVDIL  127 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~-~~~~~~-~~~~~~~~l~~l  127 (1247)
                      ++.-++|+|+++..  +...++.-.+-.-..++.+|++|.+ ..+... ......+.+.++
T Consensus        94 ~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~~~~~~  154 (290)
T PRK05917         94 SPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSIHIPME  154 (290)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEEEccch
Confidence            56778899999875  3334443333333334555544444 444332 344667777654

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

Probab=84.86  E-value=1.7  Score=44.27  Aligned_cols=62  Identities=23%  Similarity=0.320  Sum_probs=38.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-.|++|+++..       .+||.+-.   -+-+++-+.          +-...+.++++-.+.++.|++.||.+
T Consensus       220 pgtgktl~aravanrtd-------acfirvig---selvqkyvg----------egarmvrelf~martkkaciiffdei  279 (435)
T KOG0729|consen  220 PGTGKTLCARAVANRTD-------ACFIRVIG---SELVQKYVG----------EGARMVRELFEMARTKKACIIFFDEI  279 (435)
T ss_pred             CCCchhHHHHHHhcccC-------ceEEeehh---HHHHHHHhh----------hhHHHHHHHHHHhcccceEEEEeecc
Confidence            79999999999998643       22333211   111222211          22445567777777678899999998


Q ss_pred             CC
Q 000869           82 WK   83 (1247)
Q Consensus        82 ~~   83 (1247)
                      +.
T Consensus       280 da  281 (435)
T KOG0729|consen  280 DA  281 (435)
T ss_pred             cc
Confidence            64

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=84.81  E-value=3.8  Score=46.85  Aligned_cols=82  Identities=20%  Similarity=0.302  Sum_probs=48.4

Q ss_pred             CCccHHHHHHHHHHHhhhcc--CCC---------eEEEEEcCCccCHHHHHHHHHHHhC-CCcc-------ccchHHHH-
Q 000869            2 GGIGKTTLVKEVARKARKDK--LFD---------RVVFSEVSQTIDIKKIQQAIAEKLG-LVLQ-------EETESSRA-   61 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~--~f~---------~~~w~~~~~~~~~~~~~~~i~~~l~-~~~~-------~~~~~~~~-   61 (1247)
                      +|+|||||+..++++....+  ..|         .+++.-+++.....+.+.+.+..-+ +...       ......+. 
T Consensus       150 sGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd~p~~~R~~  229 (466)
T TIGR01040       150 AGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLANDPTIERII  229 (466)
T ss_pred             CCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHH
Confidence            69999999999998765100  012         5677777777666665555555444 2211       11111111 


Q ss_pred             -----HHHHHHHh--cCCeEEEEEeCCCC
Q 000869           62 -----SRLHEQLK--REEKILIILDNIWK   83 (1247)
Q Consensus        62 -----~~~~~~l~--~~~~~LlvlDd~~~   83 (1247)
                           ..+-++++  .|+++|+++||+-.
T Consensus       230 a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       230 TPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             HHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence                 22334444  38999999999854

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=84.70  E-value=3.9  Score=43.29  Aligned_cols=76  Identities=20%  Similarity=0.250  Sum_probs=44.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccc---------------------cchHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE---------------------ETESSR   60 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~---------------------~~~~~~   60 (1247)
                      +|+|||++|.+++......  =..++|++..+.  ...+.+++ ..++....+                     ......
T Consensus        34 ~GsGKt~l~~~~~~~~~~~--g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~~~~~~~~~~l  108 (234)
T PRK06067         34 HGTGKSVLSQQFVYGALKQ--GKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGFEWNSTLANKL  108 (234)
T ss_pred             CCCChHHHHHHHHHHHHhC--CCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccccccCcchHHHH
Confidence            6999999999997765322  467999998654  34444443 333322110                     111233


Q ss_pred             HHHHHHHHhcCCeEEEEEeCCC
Q 000869           61 ASRLHEQLKREEKILIILDNIW   82 (1247)
Q Consensus        61 ~~~~~~~l~~~~~~LlvlDd~~   82 (1247)
                      ...+.+.+...+.-++|+|.+.
T Consensus       109 l~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067        109 LELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             HHHHHHHHHhcCCCEEEEecHH
Confidence            3444444443466688899875

>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=84.48  E-value=0.48  Score=43.35  Aligned_cols=23  Identities=48%  Similarity=0.735  Sum_probs=16.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRV   26 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~   26 (1247)
                      +|+|||++|+.++.....+  |.++
T Consensus         8 PG~GKT~la~~lA~~~~~~--f~RI   30 (131)
T PF07726_consen    8 PGVGKTTLAKALARSLGLS--FKRI   30 (131)
T ss_dssp             --HHHHHHHHHHHHHTT----EEEE
T ss_pred             CccHHHHHHHHHHHHcCCc--eeEE
Confidence            7999999999999987644  6554

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.

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=84.46  E-value=2  Score=47.55  Aligned_cols=32  Identities=19%  Similarity=0.379  Sum_probs=22.2

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ   33 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~   33 (1247)
                      ++|+||||+|+.+++.......+ .+.+++..+
T Consensus         7 l~GaGKST~~~~l~~~l~~~~g~-~v~~~~~Dd   38 (340)
T TIGR03575         7 LPAAGKSTLARSLSATLRRERGW-AVAVITYDD   38 (340)
T ss_pred             CCCCCHHHHHHHHHHHHHhccCC-eEEEEcccc
Confidence            57999999999999888632223 355555443

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=84.43  E-value=3.7  Score=47.10  Aligned_cols=82  Identities=21%  Similarity=0.360  Sum_probs=49.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCc-------cccchHHH------HHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVL-------QEETESSR------ASRLHEQ   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~~------~~~~~~~   67 (1247)
                      +|+|||+|+.++++.... .+-+.++|+-+++. ....++.+.+...=.+..       .......+      ...+-++
T Consensus       147 ~G~GKt~l~~~~~~~~~~-~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~~a~tiAEy  225 (449)
T TIGR03305       147 AGVGKTVLLTEMIHNMVG-QHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHTALTMAEY  225 (449)
T ss_pred             CCCChhHHHHHHHHHHHh-cCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHHHHHHHHHH
Confidence            699999999999887542 22367888877654 446666666654322111       11111111      1233344


Q ss_pred             Hh--cCCeEEEEEeCCCCc
Q 000869           68 LK--REEKILIILDNIWKR   84 (1247)
Q Consensus        68 l~--~~~~~LlvlDd~~~~   84 (1247)
                      ++  .|+++|+++||+-.-
T Consensus       226 frd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       226 FRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHhcCCceEEEecChHHH
Confidence            44  379999999998543

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>CHL00206 ycf2 Ycf2; Provisional

Probab=84.41  E-value=5.7  Score=53.08  Aligned_cols=77  Identities=12%  Similarity=0.010  Sum_probs=40.6

Q ss_pred             HHHHHHHHhcCCeEEEEEeCCCCccc-------chhhccCCCC-----CCCCcEEEEecCChhhhh----hcC-CcceEE
Q 000869           61 ASRLHEQLKREEKILIILDNIWKRVD-------LETVGIPFGD-----DHRGCKLLLTARDRTVLF----SMG-SEKNFL  123 (1247)
Q Consensus        61 ~~~~~~~l~~~~~~LlvlDd~~~~~~-------~~~l~~~~~~-----~~~~~~vliTtR~~~~~~----~~~-~~~~~~  123 (1247)
                      +..+.+..++..+|+|.+|++++...       +..+...+..     ...|--||-+|-.+.+..    +.+ -...+.
T Consensus      1721 Ir~lFelARk~SPCIIFIDEIDaL~~~ds~~ltL~qLLneLDg~~~~~s~~~VIVIAATNRPD~LDPALLRPGRFDR~I~ 1800 (2281)
T CHL00206       1721 ITLQFELAKAMSPCIIWIPNIHDLNVNESNYLSLGLLVNSLSRDCERCSTRNILVIASTHIPQKVDPALIAPNKLNTCIK 1800 (2281)
T ss_pred             HHHHHHHHHHCCCeEEEEEchhhcCCCccceehHHHHHHHhccccccCCCCCEEEEEeCCCcccCCHhHcCCCCCCeEEE
Confidence            45556666667899999999987621       2222222211     112334555665454433    111 245777


Q ss_pred             cCCCCHHHHHHHHH
Q 000869          124 VDILKEEEAWRLFK  137 (1247)
Q Consensus       124 l~~l~~~ea~~l~~  137 (1247)
                      ++.++..+..+.|.
T Consensus      1801 Ir~Pd~p~R~kiL~ 1814 (2281)
T CHL00206       1801 IRRLLIPQQRKHFF 1814 (2281)
T ss_pred             eCCCCchhHHHHHH
Confidence            77666554444443

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=84.38  E-value=3.6  Score=42.29  Aligned_cols=37  Identities=27%  Similarity=0.318  Sum_probs=30.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKI   40 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~   40 (1247)
                      ||+||||++..++.....+  =..|.-|+......+...
T Consensus        11 GGaGKTT~~~~LAs~la~~--G~~V~lIDaDpn~pl~~W   47 (231)
T PF07015_consen   11 GGAGKTTAAMALASELAAR--GARVALIDADPNQPLAKW   47 (231)
T ss_pred             CCCcHHHHHHHHHHHHHHC--CCeEEEEeCCCCCcHHHH
Confidence            8999999999999998754  467888888877766644

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=84.30  E-value=3  Score=48.14  Aligned_cols=79  Identities=24%  Similarity=0.247  Sum_probs=46.1

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCCcccc----chHHHHHHHHHHHhcCCeEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEE----TESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~----~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      .+|+||||.|..++...... . ..|..+++.... ...+.++.++.+++.+....    +....+....++.. +. -+
T Consensus       103 ~~GsGKTTtaakLA~~L~~~-g-~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~~-~~-Dv  178 (437)
T PRK00771        103 LQGSGKTTTAAKLARYFKKK-G-LKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKFK-KA-DV  178 (437)
T ss_pred             CCCCcHHHHHHHHHHHHHHc-C-CeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHhh-cC-CE
Confidence            37999999999999888743 2 355556654332 23445666777776654322    12222333344443 23 56


Q ss_pred             EEEeCCCC
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlDd~~~   83 (1247)
                      +|+|-...
T Consensus       179 VIIDTAGr  186 (437)
T PRK00771        179 IIVDTAGR  186 (437)
T ss_pred             EEEECCCc
Confidence            78888743

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=84.15  E-value=3.1  Score=42.35  Aligned_cols=44  Identities=23%  Similarity=0.355  Sum_probs=31.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ   53 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~   53 (1247)
                      ||+||||+|...+.+...++. ..|.-|++....++.       .+||...+
T Consensus         9 GG~GKTtiaalll~~l~~~~~-~~VLvVDaDpd~nL~-------~~LGve~~   52 (255)
T COG3640           9 GGVGKTTIAALLLKRLLSKGG-YNVLVVDADPDSNLP-------EALGVEEP   52 (255)
T ss_pred             CCccHHHHHHHHHHHHHhcCC-ceEEEEeCCCCCChH-------HhcCCCCC
Confidence            899999999997777664432 457778877766544       56777665

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

Probab=84.00  E-value=4  Score=41.11  Aligned_cols=70  Identities=24%  Similarity=0.205  Sum_probs=43.2

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      ++|+||||=+...++..-.+.+=+++.=.++++...+.-+-..|-              ..++-+..+-.++.-.+|+|.
T Consensus        56 pPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK--------------~FAQ~kv~lp~grhKIiILDE  121 (333)
T KOG0991|consen   56 PPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIK--------------MFAQKKVTLPPGRHKIIILDE  121 (333)
T ss_pred             CCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHH--------------HHHHhhccCCCCceeEEEeec
Confidence            689999999999999987555556677677666554433322221              000000111126777889999


Q ss_pred             CCCc
Q 000869           81 IWKR   84 (1247)
Q Consensus        81 ~~~~   84 (1247)
                      +|..
T Consensus       122 ADSM  125 (333)
T KOG0991|consen  122 ADSM  125 (333)
T ss_pred             cchh
Confidence            9875

>COG1192 Soj ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=83.95  E-value=1.2  Score=48.14  Aligned_cols=36  Identities=25%  Similarity=0.366  Sum_probs=28.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIK   38 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~   38 (1247)
                      ||+||||+|-.++....... -..|..|+.....+..
T Consensus        12 GGvGKTT~a~nLa~~La~~~-~~kVLliDlDpQ~s~t   47 (259)
T COG1192          12 GGVGKTTTAVNLAAALAKRG-GKKVLLIDLDPQGSLT   47 (259)
T ss_pred             CCccHHHHHHHHHHHHHHhc-CCcEEEEeCCCcchhh
Confidence            89999999999999987321 2679999988765433

>PRK14974 cell division protein FtsY; Provisional

Probab=83.91  E-value=4.3  Score=45.09  Aligned_cols=82  Identities=22%  Similarity=0.253  Sum_probs=44.5

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCcccc----chHHHHHHHHHHHhcCCeEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVLQEE----TESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~~~----~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      ++|+||||+++++++..... .+ .|+.++.... .....-++..+..++.+....    +....+....+.......-+
T Consensus       148 ~~GvGKTTtiakLA~~l~~~-g~-~V~li~~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai~~~~~~~~Dv  225 (336)
T PRK14974        148 VNGTGKTTTIAKLAYYLKKN-GF-SVVIAAGDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAIEHAKARGIDV  225 (336)
T ss_pred             CCCCCHHHHHHHHHHHHHHc-CC-eEEEecCCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHHHHHHhCCCCE
Confidence            47999999999999887643 23 4555654422 223334556677777544211    11222222222222222338


Q ss_pred             EEEeCCCCc
Q 000869           76 IILDNIWKR   84 (1247)
Q Consensus        76 lvlDd~~~~   84 (1247)
                      +++|-+...
T Consensus       226 VLIDTaGr~  234 (336)
T PRK14974        226 VLIDTAGRM  234 (336)
T ss_pred             EEEECCCcc
Confidence            888988654

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=83.90  E-value=0.033  Score=55.26  Aligned_cols=86  Identities=14%  Similarity=0.026  Sum_probs=73.4

Q ss_pred             ccccCCCCcEEEccCcCCCCc-ccccCCCCCcEEEccCCCCCcCchhhcCCCCCcEEeccCCCCCcccChhhhcCCCCCC
Q 000869          389 SIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLE  467 (1247)
Q Consensus       389 ~l~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~~~~L~~L~  467 (1247)
                      .+.....-.+||++.|++..+ ..++.+..|..||++.+.+..+|..++.+..++++++.+| ..+..| .+++++++++
T Consensus        37 ei~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~n-~~~~~p-~s~~k~~~~k  114 (326)
T KOG0473|consen   37 EIASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHKN-NHSQQP-KSQKKEPHPK  114 (326)
T ss_pred             hhhccceeeeehhhhhHHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhcc-chhhCC-ccccccCCcc
Confidence            466778889999999988777 7788899999999999999999999999999999999887 777774 4588999999


Q ss_pred             EEEeecCcc
Q 000869          468 ELYMSNCFV  476 (1247)
Q Consensus       468 ~L~l~~~~~  476 (1247)
                      .+++.++.+
T Consensus       115 ~~e~k~~~~  123 (326)
T KOG0473|consen  115 KNEQKKTEF  123 (326)
T ss_pred             hhhhccCcc
Confidence            988877643

>PRK10867 signal recognition particle protein; Provisional

Probab=83.81  E-value=4.4  Score=46.66  Aligned_cols=50  Identities=22%  Similarity=0.331  Sum_probs=30.5

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLV   51 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~   51 (1247)
                      .+|+||||.|..++....... -..|..+++..... ..+-++..++..+.+
T Consensus       108 ~~GsGKTTtaakLA~~l~~~~-G~kV~lV~~D~~R~aa~eQL~~~a~~~gv~  158 (433)
T PRK10867        108 LQGAGKTTTAGKLAKYLKKKK-KKKVLLVAADVYRPAAIEQLKTLGEQIGVP  158 (433)
T ss_pred             CCCCcHHHHHHHHHHHHHHhc-CCcEEEEEccccchHHHHHHHHHHhhcCCe
Confidence            379999999999998776431 23466666654332 223344456665544

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=83.78  E-value=1.9  Score=43.42  Aligned_cols=100  Identities=22%  Similarity=0.256  Sum_probs=53.9

Q ss_pred             CCccHHHHHHHHHHHhhhc-cCCC--eEEEEEcCCccCH---HHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKD-KLFD--RVVFSEVSQTIDI---KKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~-~~f~--~~~w~~~~~~~~~---~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      +|+||||+.+.+++-...+ +.|-  .|.-|+-+...-.   ..=+..++.+...-.+ ..+.+   -+.-..++-.+=+
T Consensus       146 P~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvpq~~~g~R~dVld~-cpk~~---gmmmaIrsm~PEV  221 (308)
T COG3854         146 PQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVPQHGRGRRMDVLDP-CPKAE---GMMMAIRSMSPEV  221 (308)
T ss_pred             CCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCchhhhhhhhhhccc-chHHH---HHHHHHHhcCCcE
Confidence            7999999999999887753 3342  3555554332110   0011122222211111 11222   2233333457788


Q ss_pred             EEEeCCCCcccchhhccCCCCCCCCcEEEEecC
Q 000869           76 IILDNIWKRVDLETVGIPFGDDHRGCKLLLTAR  108 (1247)
Q Consensus        76 lvlDd~~~~~~~~~l~~~~~~~~~~~~vliTtR  108 (1247)
                      +|.|.+...++..++...   ...|.+++.|.-
T Consensus       222 iIvDEIGt~~d~~A~~ta---~~~GVkli~TaH  251 (308)
T COG3854         222 IIVDEIGTEEDALAILTA---LHAGVKLITTAH  251 (308)
T ss_pred             EEEeccccHHHHHHHHHH---HhcCcEEEEeec
Confidence            999999988776655433   345777777654

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

Probab=83.76  E-value=3.3  Score=50.59  Aligned_cols=126  Identities=15%  Similarity=0.148  Sum_probs=76.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCC-----CeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLF-----DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILI   76 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f-----~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Ll   76 (1247)
                      +|||||++|.-++.+...++-.     ..++-.+++.             -+....-..+-.++...+.+.+.+..++.|
T Consensus       200 pGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~sLD~g~-------------LvAGakyRGeFEeRlk~vl~ev~~~~~vIL  266 (786)
T COG0542         200 PGVGKTAIVEGLAQRIVNGDVPESLKDKRIYSLDLGS-------------LVAGAKYRGEFEERLKAVLKEVEKSKNVIL  266 (786)
T ss_pred             CCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEEecHHH-------------HhccccccCcHHHHHHHHHHHHhcCCCeEE
Confidence            5999999999999988654322     2233233221             111222223445677777777776569999


Q ss_pred             EEeCCCCcc----------cchhhccCCCCCCCCcEEEEecCChhh---hh---hcCCcceEEcCCCCHHHHHHHHHHHh
Q 000869           77 ILDNIWKRV----------DLETVGIPFGDDHRGCKLLLTARDRTV---LF---SMGSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        77 vlDd~~~~~----------~~~~l~~~~~~~~~~~~vliTtR~~~~---~~---~~~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      .+|.++...          +...+.-|....|.--.|--||-+..-   .+   ..+..+.+.|++.+.+++...++-..
T Consensus       267 FIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         267 FIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             EEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            999987641          122233333334444446667733321   11   12456789999999999999998776

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=83.58  E-value=21  Score=42.65  Aligned_cols=168  Identities=18%  Similarity=0.129  Sum_probs=95.7

Q ss_pred             CCccHHHHHHHHHHHhhh---ccCCCe--EEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHh----cCC
Q 000869            2 GGIGKTTLVKEVARKARK---DKLFDR--VVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK----REE   72 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~---~~~f~~--~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~----~~~   72 (1247)
                      +|.|||+.+.+|.+....   .+.-..  .+.|+.-.-.+..+++..|...+.....  ......+.+..++.    +.+
T Consensus       431 PGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~I~~~lsg~~~--~~~~al~~L~~~f~~~k~~~~  508 (767)
T KOG1514|consen  431 PGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEKIWEALSGERV--TWDAALEALNFRFTVPKPKRS  508 (767)
T ss_pred             CCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHHHHHhcccCcc--cHHHHHHHHHHhhccCCCCCC
Confidence            799999999999997752   222222  2345555667799999999999876543  23344455556655    246


Q ss_pred             eEEEEEeCCCCc-----ccchhhccCCCCCCCCcEEEEecC--Chhhhh-----hc---CCcceEEcCCCCHHHHHHHHH
Q 000869           73 KILIILDNIWKR-----VDLETVGIPFGDDHRGCKLLLTAR--DRTVLF-----SM---GSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        73 ~~LlvlDd~~~~-----~~~~~l~~~~~~~~~~~~vliTtR--~~~~~~-----~~---~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      .+++++|++|..     +.+..+. -|+ ..+++|++|.+=  ......     +.   -....+...+.+..+-.+++.
T Consensus       509 ~~VvLiDElD~Lvtr~QdVlYn~f-dWp-t~~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~tRi~F~pYth~qLq~Ii~  586 (767)
T KOG1514|consen  509 TTVVLIDELDILVTRSQDVLYNIF-DWP-TLKNSKLVVIAIANTMDLPERLLMNRVSSRLGLTRICFQPYTHEQLQEIIS  586 (767)
T ss_pred             CEEEEeccHHHHhcccHHHHHHHh-cCC-cCCCCceEEEEecccccCHHHHhccchhhhccceeeecCCCCHHHHHHHHH
Confidence            788888998653     2233332 222 345777666441  111111     00   122356667788888888877


Q ss_pred             HHhCC--CCCChhhHHHHHHHHHHcCCCchHHHHHHHH
Q 000869          138 LMAGD--DVENRELKSTATEVAKACKGLPIALTTIARA  173 (1247)
Q Consensus       138 ~~~~~--~~~~~~~~~~~~~i~~~~~g~Plai~~~a~~  173 (1247)
                      .....  .......+-++++|+.--|-.-.|+.+.-+.
T Consensus       587 ~RL~~~~~f~~~aielvarkVAavSGDaRraldic~RA  624 (767)
T KOG1514|consen  587 ARLKGLDAFENKAIELVARKVAAVSGDARRALDICRRA  624 (767)
T ss_pred             HhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHHH
Confidence            77732  1222223334555555555555555444333

>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily

Probab=83.42  E-value=3.2  Score=41.33  Aligned_cols=32  Identities=25%  Similarity=0.209  Sum_probs=24.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI   35 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~   35 (1247)
                      ||+||||+|..++......  =..|.-|+.....
T Consensus         9 gG~GKTt~a~~LA~~la~~--g~~vllvD~D~q~   40 (169)
T cd02037           9 GGVGKSTVAVNLALALAKL--GYKVGLLDADIYG   40 (169)
T ss_pred             CcCChhHHHHHHHHHHHHc--CCcEEEEeCCCCC
Confidence            8999999999999988743  2356667765444

Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]

Probab=83.40  E-value=1.7  Score=46.99  Aligned_cols=35  Identities=26%  Similarity=0.411  Sum_probs=24.3

Q ss_pred             CeEEEEEeCCCCc--ccchhhccCCCCCCCCcEEEEecCC
Q 000869           72 EKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARD  109 (1247)
Q Consensus        72 ~~~LlvlDd~~~~--~~~~~l~~~~~~~~~~~~vliTtR~  109 (1247)
                      ...++|+|.+++.  .++..+   +...|.|+||+.|--.
T Consensus       351 ~~~FiIIDEaQNLTpheikTi---ltR~G~GsKIVl~gd~  387 (436)
T COG1875         351 PDSFIIIDEAQNLTPHELKTI---LTRAGEGSKIVLTGDP  387 (436)
T ss_pred             ccceEEEehhhccCHHHHHHH---HHhccCCCEEEEcCCH
Confidence            5678999999875  334443   3446789998888543

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=83.34  E-value=6.2  Score=38.82  Aligned_cols=109  Identities=20%  Similarity=0.188  Sum_probs=56.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEE---EEEcCCccCHHHHHHHHH---HHhCCC--cccc---chHHHH----HHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVV---FSEVSQTIDIKKIQQAIA---EKLGLV--LQEE---TESSRA----SRLHE   66 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~---w~~~~~~~~~~~~~~~i~---~~l~~~--~~~~---~~~~~~----~~~~~   66 (1247)
                      .|.||||.|...+.+.... .+ .|+   |+.-.....-..+++.+.   .+.+..  ....   ......    +....
T Consensus        14 ~GkGKtt~a~g~a~ra~~~-g~-~v~ivQFlKg~~~~GE~~~l~~~~~~~~~~g~g~~~~~~~~~~~~~~~~~~~~~a~~   91 (173)
T TIGR00708        14 NGKGKTTAAFGMALRALGH-GK-KVGVIQFIKGAWPNGERAAFEPHGVEFQVMGTGFTWETQNREADTAIAKAAWQHAKE   91 (173)
T ss_pred             CCCChHHHHHHHHHHHHHC-CC-eEEEEEEecCCcccChHHHHHhcCcEEEECCCCCeecCCCcHHHHHHHHHHHHHHHH
Confidence            5899999999999887633 23 333   444332222333333321   001111  0001   111112    33344


Q ss_pred             HHhcCCeEEEEEeCCCCc-----ccchhhccCCCCCCCCcEEEEecCChhh
Q 000869           67 QLKREEKILIILDNIWKR-----VDLETVGIPFGDDHRGCKLLLTARDRTV  112 (1247)
Q Consensus        67 ~l~~~~~~LlvlDd~~~~-----~~~~~l~~~~~~~~~~~~vliTtR~~~~  112 (1247)
                      .+..+.-=++|||.+-..     -+.+.+...+.....+.-||+|-|+..-
T Consensus        92 ~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p~  142 (173)
T TIGR00708        92 MLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCPQ  142 (173)
T ss_pred             HHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCCH
Confidence            444467789999998533     2223333334445567789999998854

Alternate name: corrinoid adenosyltransferase.

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=83.32  E-value=0.89  Score=45.08  Aligned_cols=34  Identities=24%  Similarity=0.245  Sum_probs=26.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID   36 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~   36 (1247)
                      .|+|||.+|+++++.... +.....+-++.+....
T Consensus        12 sGvGKT~la~~la~~l~~-~~~~~~~~~d~s~~~~   45 (171)
T PF07724_consen   12 SGVGKTELAKALAELLFV-GSERPLIRIDMSEYSE   45 (171)
T ss_dssp             TTSSHHHHHHHHHHHHT--SSCCEEEEEEGGGHCS
T ss_pred             CCCCHHHHHHHHHHHhcc-CCccchHHHhhhcccc
Confidence            699999999999998773 1256778888876655

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=83.20  E-value=5.2  Score=43.55  Aligned_cols=77  Identities=17%  Similarity=0.171  Sum_probs=42.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHh-CCCcc-----ccchHHHHHHHHHHHhcCCeEE
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKL-GLVLQ-----EETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l-~~~~~-----~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      +|+||||+|.+++...... .=..|+|+++...  ..++...+...+ +....     .....+......+.+. +.+.+
T Consensus        39 ~G~GKT~l~~~~~~~~~~~-~g~~vl~iS~E~~--~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l  114 (271)
T cd01122          39 TGVGKTTFLREYALDLITQ-HGVRVGTISLEEP--VVRTARRLLGQYAGKRLHLPDTVFIYTLEEFDAAFDEFE-GTGRL  114 (271)
T ss_pred             CCCCHHHHHHHHHHHHHHh-cCceEEEEEcccC--HHHHHHHHHHHHhCCCcccCCccccccHHHHHHHHHHhc-CCCcE
Confidence            6999999999998876422 1256889987663  344444443332 22221     1122233344444444 34445


Q ss_pred             EEEeCCC
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlDd~~   82 (1247)
                      .|.|...
T Consensus       115 ~i~d~~~  121 (271)
T cd01122         115 FMYDSFG  121 (271)
T ss_pred             EEEcCCC
Confidence            6666654

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>TIGR00959 ffh signal recognition particle protein

Probab=82.95  E-value=5.1  Score=46.17  Aligned_cols=81  Identities=19%  Similarity=0.179  Sum_probs=45.4

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCCcccc----chHHHHHHHHHHHhcCCeEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQEE----TESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~~~----~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      .+|+||||.|..++.....+. -..|.-+++..... ..+-++..+...+.+....    +..+......+....+..-+
T Consensus       107 ~~GsGKTTtaakLA~~l~~~~-g~kV~lV~~D~~R~~a~~QL~~~a~~~gvp~~~~~~~~~P~~i~~~al~~~~~~~~Dv  185 (428)
T TIGR00959       107 LQGSGKTTTCGKLAYYLKKKQ-GKKVLLVACDLYRPAAIEQLKVLGQQVGVPVFALGKGQSPVEIARRALEYAKENGFDV  185 (428)
T ss_pred             CCCCcHHHHHHHHHHHHHHhC-CCeEEEEeccccchHHHHHHHHHHHhcCCceEecCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            379999999999998865221 23566666654332 3344455566666543221    22233333444443233347


Q ss_pred             EEEeCCC
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlDd~~   82 (1247)
                      +|+|-..
T Consensus       186 VIIDTaG  192 (428)
T TIGR00959       186 VIVDTAG  192 (428)
T ss_pred             EEEeCCC
Confidence            7778775

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.

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=82.90  E-value=3.2  Score=49.31  Aligned_cols=76  Identities=17%  Similarity=0.246  Sum_probs=44.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccc----------------cchHHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE----------------ETESSRASRLH   65 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~----------------~~~~~~~~~~~   65 (1247)
                      +|+||||||.+++.....+  -+.++|+...+.  ..++.+. ++.+|.+...                ....+.+..+.
T Consensus       272 ~G~GKt~l~~~f~~~~~~~--ge~~~y~s~eEs--~~~i~~~-~~~lg~~~~~~~~~g~l~~~~~~p~~~~~~~~~~~i~  346 (484)
T TIGR02655       272 TGTGKTLLVSKFLENACAN--KERAILFAYEES--RAQLLRN-AYSWGIDFEEMEQQGLLKIICAYPESAGLEDHLQIIK  346 (484)
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCeEEEEEeeCC--HHHHHHH-HHHcCCChHHHhhCCcEEEEEcccccCChHHHHHHHH
Confidence            7999999999999887533  467888876553  3333333 3455543211                01133444555


Q ss_pred             HHHhcCCeEEEEEeCCC
Q 000869           66 EQLKREEKILIILDNIW   82 (1247)
Q Consensus        66 ~~l~~~~~~LlvlDd~~   82 (1247)
                      +.+...+.-.+|+|.+.
T Consensus       347 ~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       347 SEIADFKPARIAIDSLS  363 (484)
T ss_pred             HHHHHcCCCEEEEcCHH
Confidence            55544455566677664

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.

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=82.83  E-value=1.6  Score=55.69  Aligned_cols=169  Identities=18%  Similarity=0.142  Sum_probs=85.1

Q ss_pred             CCccHHHHHHHHHHHhhhccC--CCeEEEEEcCCccCHH------HHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCe
Q 000869            2 GGIGKTTLVKEVARKARKDKL--FDRVVFSEVSQTIDIK------KIQQAIAEKLGLVLQEETESSRASRLHEQLKREEK   73 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~--f~~~~w~~~~~~~~~~------~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~   73 (1247)
                      +|.||||+..+++-....+..  =+..+++.+.......      .+..-++..+..........   ... +.+.+..+
T Consensus       231 pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~q~~~~~~l~~~~~~~~~~~~~~---~~~-~e~l~~g~  306 (824)
T COG5635         231 PGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEKQLSLIDYLAEELFSQGIAKQLI---EAH-QELLKTGK  306 (824)
T ss_pred             CCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHhhccHHHHHHHHHhccCCcchhh---HHH-HHHHhccc
Confidence            699999999999987765421  1224555443221111      22222232232222111111   111 33444899


Q ss_pred             EEEEEeCCCCccc------chhhccCCCCCCCCcEEEEecCChhhhhhcCCcceEEcCCCCHHHHHHHHH-----HHh--
Q 000869           74 ILIILDNIWKRVD------LETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDILKEEEAWRLFK-----LMA--  140 (1247)
Q Consensus        74 ~LlvlDd~~~~~~------~~~l~~~~~~~~~~~~vliTtR~~~~~~~~~~~~~~~l~~l~~~ea~~l~~-----~~~--  140 (1247)
                      +++.+|++++...      ...+ ..+.+..+.++||+|+|....-........+++..+.++.-.+...     ...  
T Consensus       307 ~llLlDGlDe~~~~~~~~~~~~i-~~f~~~~~~~~~iltcR~~~~~~~~~~f~~~ei~~~~~~~i~~~~~~~~~~~~~~~  385 (824)
T COG5635         307 LLLLLDGLDELEPKNQRALIREI-NKFLQEYPDAQVLLTCRPDTYKEEFKGFAVFEIYKFLDLQINQFILYQWLDAFIED  385 (824)
T ss_pred             hhhHhhccchhhhhhHHHHHHHH-HHHhhhccCCeEEEEeccchhhhhhhhhhhccchhhhHHHHHHHHHHHHHHHHHHh
Confidence            9999999987621      1221 2233344588899999877554433334455566665554443332     111  


Q ss_pred             --CCCCCC--hh---hHHHHHHHHHHcCCCchHHHHHHHHHh
Q 000869          141 --GDDVEN--RE---LKSTATEVAKACKGLPIALTTIARALR  175 (1247)
Q Consensus       141 --~~~~~~--~~---~~~~~~~i~~~~~g~Plai~~~a~~l~  175 (1247)
                        ++....  ..   ...-..+-++..+..|+++.+.+..-.
T Consensus       386 ~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~  427 (824)
T COG5635         386 WFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQ  427 (824)
T ss_pred             hhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhh
Confidence              211111  01   111123334444888998888875444

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

Probab=82.80  E-value=6.7  Score=46.20  Aligned_cols=141  Identities=18%  Similarity=0.162  Sum_probs=75.0

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||++|+++++.-...       |+.+..+.    +...   .+      .+....+.+++++.+.-.++++.||.+
T Consensus       477 PGC~KT~lAkalAne~~~n-------FlsvkgpE----L~sk---~v------GeSEr~ir~iF~kAR~~aP~IiFfDEi  536 (693)
T KOG0730|consen  477 PGCGKTLLAKALANEAGMN-------FLSVKGPE----LFSK---YV------GESERAIREVFRKARQVAPCIIFFDEI  536 (693)
T ss_pred             CCcchHHHHHHHhhhhcCC-------eeeccCHH----HHHH---hc------CchHHHHHHHHHHHhhcCCeEEehhhH
Confidence            7999999999999876543       34433321    1111   11      123445567777776667799999988


Q ss_pred             CCccc-------------chhhccCCCCCCCCcEEEE--ec-CChhhhh-hcC---CcceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKRVD-------------LETVGIPFGDDHRGCKLLL--TA-RDRTVLF-SMG---SEKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~~~-------------~~~l~~~~~~~~~~~~vli--Tt-R~~~~~~-~~~---~~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      |...-             +..+..-+-.......|+|  .| |...+-. -++   ....+-++.-+.+.-.++|+.++.
T Consensus       537 Dsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~k  616 (693)
T KOG0730|consen  537 DALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAK  616 (693)
T ss_pred             HhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHh
Confidence            75411             1111111111111212333  33 3333221 112   356777888888899999999984


Q ss_pred             CCCCChhhHHHHHHHHHHcCCCc
Q 000869          142 DDVENRELKSTATEVAKACKGLP  164 (1247)
Q Consensus       142 ~~~~~~~~~~~~~~i~~~~~g~P  164 (1247)
                      .-.-. +. ....+++++..|.-
T Consensus       617 kmp~~-~~-vdl~~La~~T~g~S  637 (693)
T KOG0730|consen  617 KMPFS-ED-VDLEELAQATEGYS  637 (693)
T ss_pred             cCCCC-cc-ccHHHHHHHhccCC
Confidence            22111 11 22355566655543

>KOG3347 consensus Predicted nucleotide kinase/nuclear protein involved oxidative stress response [Nucleotide transport and metabolism]

Probab=82.60  E-value=1.9  Score=40.13  Aligned_cols=60  Identities=20%  Similarity=0.285  Sum_probs=35.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKR   70 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~   70 (1247)
                      +|+||||+|.+++....       .-||++++...-..++...-+....  ...+++.....+-..+..
T Consensus        16 PG~GKstl~~~lae~~~-------~~~i~isd~vkEn~l~~gyDE~y~c--~i~DEdkv~D~Le~~m~~   75 (176)
T KOG3347|consen   16 PGTGKSTLAERLAEKTG-------LEYIEISDLVKENNLYEGYDEEYKC--HILDEDKVLDELEPLMIE   75 (176)
T ss_pred             CCCCchhHHHHHHHHhC-------CceEehhhHHhhhcchhcccccccC--ccccHHHHHHHHHHHHhc
Confidence            79999999999996543       2377777655444444433333221  223455555666666663

>PF01656 CbiA: CobQ/CobB/MinD/ParA nucleotide binding domain; InterPro: IPR002586 This entry consists of various cobyrinic acid a,c-diamide synthases

Probab=82.45  E-value=1.7  Score=44.50  Aligned_cols=37  Identities=24%  Similarity=0.425  Sum_probs=27.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKI   40 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~   40 (1247)
                      ||+||||+|..++.....+  -..|+-++..........
T Consensus         8 GG~GKTt~a~~la~~la~~--g~~VlliD~D~~~~~~~~   44 (195)
T PF01656_consen    8 GGVGKTTIAANLAQALARK--GKKVLLIDLDPQAPNLSI   44 (195)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TS-EEEEEESTTSHHHHH
T ss_pred             CCccHHHHHHHHHhccccc--cccccccccCcccccHHH
Confidence            8999999999999998863  456788887655444433

These include CbiA and CbiP from Salmonella typhimurium []., and CobQ from Rhodobacter capsulatus []. These amidases catalyse amidations to various side chains of hydrogenobyrinic acid or cobyrinic acid a,c-diamide in the biosynthesis of cobalamin (vitamin B12) from uroporphyrinogen III. Vitamin B12 is an important cofactor and an essential nutrient for many plants and animals and is primarily produced by bacteria [].; PDB: 3K9G_A 3K9H_B 3EZ9_B 3EZF_A 3EZ2_B 3EZ6_A 3EZ7_A 1G3Q_A 1G3R_A 1DTS_A ....

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=82.06  E-value=3.2  Score=39.40  Aligned_cols=30  Identities=17%  Similarity=-0.038  Sum_probs=23.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEV   31 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~   31 (1247)
                      .|.|||+.+..++.+.........++|+.-
T Consensus         9 ~G~GKT~~~~~~~~~~~~~~~~~~~lv~~p   38 (144)
T cd00046           9 TGSGKTLAALLPILELLDSLKGGQVLVLAP   38 (144)
T ss_pred             CCCchhHHHHHHHHHHHhcccCCCEEEEcC
Confidence            699999999999988765434567787753

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

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

Probab=82.04  E-value=1.8  Score=53.78  Aligned_cols=73  Identities=15%  Similarity=0.253  Sum_probs=39.6

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+.++....     ...+.++.+.......    +.+-+|.+..-.. .+....+...+......+++||++
T Consensus       497 ~GvGKT~lAk~LA~~l~-----~~~i~id~se~~~~~~----~~~LiG~~~gyvg-~~~~g~L~~~v~~~p~sVlllDEi  566 (758)
T PRK11034        497 TGVGKTEVTVQLSKALG-----IELLRFDMSEYMERHT----VSRLIGAPPGYVG-FDQGGLLTDAVIKHPHAVLLLDEI  566 (758)
T ss_pred             CCCCHHHHHHHHHHHhC-----CCcEEeechhhccccc----HHHHcCCCCCccc-ccccchHHHHHHhCCCcEEEeccH
Confidence            69999999999998763     2345556554333221    2222332211000 011112333344456789999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus       567 eka  569 (758)
T PRK11034        567 EKA  569 (758)
T ss_pred             hhh
Confidence            876

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

Probab=82.03  E-value=12  Score=39.41  Aligned_cols=141  Identities=26%  Similarity=0.275  Sum_probs=73.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-||++|+.+....       |++++...    +.....   |      +....+..+++-.+..++.+|.+|.+
T Consensus       175 PGTGKSYLAKAVATEAnST-------FFSvSSSD----LvSKWm---G------ESEkLVknLFemARe~kPSIIFiDEi  234 (439)
T KOG0739|consen  175 PGTGKSYLAKAVATEANST-------FFSVSSSD----LVSKWM---G------ESEKLVKNLFEMARENKPSIIFIDEI  234 (439)
T ss_pred             CCCcHHHHHHHHHhhcCCc-------eEEeehHH----HHHHHh---c------cHHHHHHHHHHHHHhcCCcEEEeehh
Confidence            7999999999999875422       34444322    111111   1      12334455666666678999999998


Q ss_pred             CCc---------ccc-----hhhccCC--CCCCCCcEEEEecCChhhhhh---cCCcceEEcCCCCHHHHHHHHHHHhCC
Q 000869           82 WKR---------VDL-----ETVGIPF--GDDHRGCKLLLTARDRTVLFS---MGSEKNFLVDILKEEEAWRLFKLMAGD  142 (1247)
Q Consensus        82 ~~~---------~~~-----~~l~~~~--~~~~~~~~vliTtR~~~~~~~---~~~~~~~~l~~l~~~ea~~l~~~~~~~  142 (1247)
                      +..         +.-     +-+.+.-  .....|.-||=.|..+-++..   .+....+-++--....-..+|.-+.|+
T Consensus       235 Dslcg~r~enEseasRRIKTEfLVQMqGVG~d~~gvLVLgATNiPw~LDsAIRRRFekRIYIPLPe~~AR~~MF~lhlG~  314 (439)
T KOG0739|consen  235 DSLCGSRSENESEASRRIKTEFLVQMQGVGNDNDGVLVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARARMFKLHLGD  314 (439)
T ss_pred             hhhccCCCCCchHHHHHHHHHHHHhhhccccCCCceEEEecCCCchhHHHHHHHHhhcceeccCCcHHHhhhhheeccCC
Confidence            742         111     1121111  112234545556655544331   111222223333344556678888875


Q ss_pred             CCCChhhHHHHHHHHHHcCCC
Q 000869          143 DVENRELKSTATEVAKACKGL  163 (1247)
Q Consensus       143 ~~~~~~~~~~~~~i~~~~~g~  163 (1247)
                      . +..-.++..+.++++..|.
T Consensus       315 t-p~~LT~~d~~eL~~kTeGy  334 (439)
T KOG0739|consen  315 T-PHVLTEQDFKELARKTEGY  334 (439)
T ss_pred             C-ccccchhhHHHHHhhcCCC
Confidence            3 3333445667777777664

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=81.93  E-value=5.5  Score=42.99  Aligned_cols=80  Identities=18%  Similarity=0.265  Sum_probs=44.0

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCCccc----cchHHHH-HHHHHHHhcCCeE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQE----ETESSRA-SRLHEQLKREEKI   74 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~~----~~~~~~~-~~~~~~l~~~~~~   74 (1247)
                      .+|+||||.+.+++......  -..|..++...... ...-++..++..+.....    .+..... ..+..... +..-
T Consensus        80 ~~G~GKTTt~akLA~~l~~~--g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~~~-~~~D  156 (272)
T TIGR00064        80 VNGVGKTTTIAKLANKLKKQ--GKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKAKA-RNID  156 (272)
T ss_pred             CCCCcHHHHHHHHHHHHHhc--CCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHHHH-CCCC
Confidence            47999999999999887643  34677787664322 223334455665543211    1112222 22222222 4455


Q ss_pred             EEEEeCCCC
Q 000869           75 LIILDNIWK   83 (1247)
Q Consensus        75 LlvlDd~~~   83 (1247)
                      ++|+|-...
T Consensus       157 ~ViIDT~G~  165 (272)
T TIGR00064       157 VVLIDTAGR  165 (272)
T ss_pred             EEEEeCCCC
Confidence            777888754

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.

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=81.87  E-value=6.1  Score=45.38  Aligned_cols=82  Identities=22%  Similarity=0.382  Sum_probs=48.8

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCc-------cccchHHH------HHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVL-------QEETESSR------ASRLHEQ   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~~------~~~~~~~   67 (1247)
                      +|+|||+|+..++.....+. -+.+++.-+++. ....++++.+...=....       .......+      ...+-++
T Consensus       152 ~G~GKt~L~~~~~~~~~~~~-~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiAEy  230 (461)
T TIGR01039       152 AGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALTGLTMAEY  230 (461)
T ss_pred             CCCChHHHHHHHHHHHHhcC-CCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            69999999999998765331 235677777654 556777777754322211       11111111      1223334


Q ss_pred             Hh--cCCeEEEEEeCCCCc
Q 000869           68 LK--REEKILIILDNIWKR   84 (1247)
Q Consensus        68 l~--~~~~~LlvlDd~~~~   84 (1247)
                      ++  .|+++|+++||+-.-
T Consensus       231 frd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       231 FRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHhcCCeeEEEecchhHH
Confidence            43  379999999998543

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.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=81.83  E-value=5.2  Score=45.79  Aligned_cols=49  Identities=16%  Similarity=0.038  Sum_probs=30.3

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc-CHHHHHHHHHHHhCCC
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLV   51 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~   51 (1247)
                      .+|+||||.|.+++......  -..|..++..... ...+-++..++..+.+
T Consensus       108 ~~GvGKTTtaaKLA~~l~~~--G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp  157 (429)
T TIGR01425       108 LQGSGKTTTCTKLAYYYQRK--GFKPCLVCADTFRAGAFDQLKQNATKARIP  157 (429)
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEcCcccchhHHHHHHHHhhccCCe
Confidence            37999999999999887643  2356667665433 2222334445555543

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.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=81.83  E-value=6.5  Score=45.01  Aligned_cols=78  Identities=19%  Similarity=0.302  Sum_probs=43.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCC-ccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ-TIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd   80 (1247)
                      .|+||||+++.++.........+.+..+.... .....+-+..+++.++..................+.  ..-++++|-
T Consensus       200 nG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~--~~d~VLIDT  277 (420)
T PRK14721        200 TGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELR--GKHMVLIDT  277 (420)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhc--CCCEEEecC
Confidence            69999999999987653322234555554433 233444466667777766544333333333334342  334455565


Q ss_pred             C
Q 000869           81 I   81 (1247)
Q Consensus        81 ~   81 (1247)
                      .
T Consensus       278 a  278 (420)
T PRK14721        278 V  278 (420)
T ss_pred             C
Confidence            4

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=81.83  E-value=18  Score=39.18  Aligned_cols=137  Identities=19%  Similarity=0.193  Sum_probs=80.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccC-HHHHHHHHHHHhCCCcc-----ccchHHHHHHHHHHHhc-----
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID-IKKIQQAIAEKLGLVLQ-----EETESSRASRLHEQLKR-----   70 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~~~~l~~-----   70 (1247)
                      .|.|||.+......+.+  ..=+..+-+.+.+... -..+++.|++++..+..     ...-.+....+...+.+     
T Consensus        58 rgsgkT~li~~~Ls~~q--~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t  135 (408)
T KOG2228|consen   58 RGSGKTILIDTRLSDIQ--ENGENFLLVRLNGELQTDKIALKGITRQLALELNRIVKSFGSFTENLSKLLEALKKGDETT  135 (408)
T ss_pred             CCCCceEeeHHHHhhHH--hcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCC
Confidence            59999999988887722  2123444455544332 33466677766643221     22334555666666654     


Q ss_pred             CCeEEEEEeCCCCccc------chhhccCC-CCCCCCcEEEEecCChhhhh-------hcCCcceEEcCCCCHHHHHHHH
Q 000869           71 EEKILIILDNIWKRVD------LETVGIPF-GDDHRGCKLLLTARDRTVLF-------SMGSEKNFLVDILKEEEAWRLF  136 (1247)
Q Consensus        71 ~~~~LlvlDd~~~~~~------~~~l~~~~-~~~~~~~~vliTtR~~~~~~-------~~~~~~~~~l~~l~~~ea~~l~  136 (1247)
                      +.++.+|+|.+|-...      +..+.... ....+-|-|-+|||-.-...       ++....++-++.+.-++-.+++
T Consensus       136 ~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~  215 (408)
T KOG2228|consen  136 SGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLY  215 (408)
T ss_pred             CceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCChHHHHHHH
Confidence            3668999999876421      11221111 12446777889998764422       2233345556778888888888


Q ss_pred             HHHh
Q 000869          137 KLMA  140 (1247)
Q Consensus       137 ~~~~  140 (1247)
                      ++..
T Consensus       216 r~ll  219 (408)
T KOG2228|consen  216 RKLL  219 (408)
T ss_pred             HHHh
Confidence            8877

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

Probab=81.79  E-value=9.9  Score=38.72  Aligned_cols=118  Identities=22%  Similarity=0.291  Sum_probs=61.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-||++|++.....  |=+|+     .    .++.+   +.||-.      ...+..+++-.+.+.+.++.+|.+
T Consensus       198 pg~gktml~kava~~t~a~--firvv-----g----sefvq---kylgeg------prmvrdvfrlakenapsiifidei  257 (408)
T KOG0727|consen  198 PGTGKTMLAKAVANHTTAA--FIRVV-----G----SEFVQ---KYLGEG------PRMVRDVFRLAKENAPSIIFIDEI  257 (408)
T ss_pred             CCCcHHHHHHHHhhccchh--eeeec-----c----HHHHH---HHhccC------cHHHHHHHHHHhccCCcEEEeehh
Confidence            7999999999999876543  43322     1    11111   122211      233445555555578888888998


Q ss_pred             CCccc--c---------------hhhc--cCCCCCCCCcEEEEecCChhhhh----hcC-CcceEEcCCCCHHHHHHHHH
Q 000869           82 WKRVD--L---------------ETVG--IPFGDDHRGCKLLLTARDRTVLF----SMG-SEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        82 ~~~~~--~---------------~~l~--~~~~~~~~~~~vliTtR~~~~~~----~~~-~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      +....  +               +-+.  ..+ ....+.|||..|.......    +.+ -...++.+--+..+-.-.|.
T Consensus       258 daiatkrfdaqtgadrevqril~ellnqmdgf-dq~~nvkvimatnradtldpallrpgrldrkiefplpdrrqkrlvf~  336 (408)
T KOG0727|consen  258 DAIATKRFDAQTGADREVQRILIELLNQMDGF-DQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFS  336 (408)
T ss_pred             hhHhhhhccccccccHHHHHHHHHHHHhccCc-CcccceEEEEecCcccccCHhhcCCccccccccCCCCchhhhhhhHH
Confidence            75410  1               1111  111 1345778898875544322    111 13455555344444444555


Q ss_pred             HHh
Q 000869          138 LMA  140 (1247)
Q Consensus       138 ~~~  140 (1247)
                      ...
T Consensus       337 tit  339 (408)
T KOG0727|consen  337 TIT  339 (408)
T ss_pred             hhh
Confidence            544

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=81.73  E-value=2  Score=42.79  Aligned_cols=17  Identities=47%  Similarity=0.675  Sum_probs=15.4

Q ss_pred             CCccHHHHHHHHHHHhh
Q 000869            2 GGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~   18 (1247)
                      +|+||||+|+++++...
T Consensus         9 pGaGK~T~A~~La~~~~   25 (178)
T COG0563           9 PGAGKSTLAKKLAKKLG   25 (178)
T ss_pred             CCCCHHHHHHHHHHHhC
Confidence            79999999999999854

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=81.53  E-value=3.2  Score=41.97  Aligned_cols=17  Identities=24%  Similarity=0.241  Sum_probs=14.9

Q ss_pred             CCCccHHHHHHHHHHHh
Q 000869            1 MGGIGKTTLVKEVARKA   17 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~   17 (1247)
                      .+|+||||+|++++...
T Consensus         7 ~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         7 GPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CCCCCHHHHHHHHHHHc
Confidence            48999999999998764

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.

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=81.44  E-value=5.1  Score=44.56  Aligned_cols=77  Identities=23%  Similarity=0.426  Sum_probs=48.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcC-CccCHHHHHHHHHHHhCCCcc-------ccchHHH------HHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVS-QTIDIKKIQQAIAEKLGLVLQ-------EETESSR------ASRLHEQ   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~-~~~~~~~~~~~i~~~l~~~~~-------~~~~~~~------~~~~~~~   67 (1247)
                      +|+|||||...+++...    +|.++---++ ....+++++++.+..-+....       +.....+      +..+-++
T Consensus       172 sGVGKStLLgMiar~t~----aDv~ViaLIGERGREVrEFIE~~Lg~egl~rsViVvATSD~s~l~R~~aa~~At~IAEy  247 (441)
T COG1157         172 SGVGKSTLLGMIARNTE----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAFTATTIAEY  247 (441)
T ss_pred             CCCcHHHHHHHHhcccc----CCEEEEEEeeccchhHHHHHHHhcchhhccceEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            69999999999998644    6765544444 456778888777655544331       1111111      1233344


Q ss_pred             Hh-cCCeEEEEEeCCC
Q 000869           68 LK-REEKILIILDNIW   82 (1247)
Q Consensus        68 l~-~~~~~LlvlDd~~   82 (1247)
                      ++ +|+++|+++|.+-
T Consensus       248 FRDqG~~VLL~mDSlT  263 (441)
T COG1157         248 FRDQGKRVLLIMDSLT  263 (441)
T ss_pred             HHhCCCeEEEEeecHH
Confidence            44 3899999999984

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

Probab=81.43  E-value=12  Score=44.40  Aligned_cols=143  Identities=16%  Similarity=0.216  Sum_probs=83.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|.|||-||.+++....-       -+|++..+.    ++   .+..|.      ..+.++.++.+....++|.+.||.+
T Consensus       710 pGcGKT~la~a~a~~~~~-------~fisvKGPE----lL---~KyIGa------SEq~vR~lF~rA~~a~PCiLFFDEf  769 (952)
T KOG0735|consen  710 PGCGKTLLASAIASNSNL-------RFISVKGPE----LL---SKYIGA------SEQNVRDLFERAQSAKPCILFFDEF  769 (952)
T ss_pred             CCCcHHHHHHHHHhhCCe-------eEEEecCHH----HH---HHHhcc------cHHHHHHHHHHhhccCCeEEEeccc
Confidence            799999999999976543       366666543    11   122232      3456677788777789999999999


Q ss_pred             CCcc-------------cchhhccCCCC--CCCCcEEEE-ecCChhhhh---hcCC-cceEEcCCCCHHHHHHHHHHHhC
Q 000869           82 WKRV-------------DLETVGIPFGD--DHRGCKLLL-TARDRTVLF---SMGS-EKNFLVDILKEEEAWRLFKLMAG  141 (1247)
Q Consensus        82 ~~~~-------------~~~~l~~~~~~--~~~~~~vli-TtR~~~~~~---~~~~-~~~~~l~~l~~~ea~~l~~~~~~  141 (1247)
                      +...             .+.++...+..  +-.|.-|+- |||..-+-.   +.+. ...+--+.-++.|-.+++...+.
T Consensus       770 dSiAPkRGhDsTGVTDRVVNQlLTelDG~Egl~GV~i~aaTsRpdliDpALLRpGRlD~~v~C~~P~~~eRl~il~~ls~  849 (952)
T KOG0735|consen  770 DSIAPKRGHDSTGVTDRVVNQLLTELDGAEGLDGVYILAATSRPDLIDPALLRPGRLDKLVYCPLPDEPERLEILQVLSN  849 (952)
T ss_pred             cccCcccCCCCCCchHHHHHHHHHhhccccccceEEEEEecCCccccCHhhcCCCccceeeeCCCCCcHHHHHHHHHHhh
Confidence            7641             12222222111  234665665 455443321   2122 34555566777888888887773


Q ss_pred             CCCCChhhHHHHHHHHHHcCCCchH
Q 000869          142 DDVENRELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       142 ~~~~~~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      ..  ..+.....+.++.+.+|.--|
T Consensus       850 s~--~~~~~vdl~~~a~~T~g~tgA  872 (952)
T KOG0735|consen  850 SL--LKDTDVDLECLAQKTDGFTGA  872 (952)
T ss_pred             cc--CCccccchHHHhhhcCCCchh
Confidence            11  111123356677778776533

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=81.16  E-value=5.4  Score=46.31  Aligned_cols=79  Identities=14%  Similarity=0.295  Sum_probs=46.0

Q ss_pred             CCccHHHHHH-HHHHHhhhccCCCe-EEEEEcCCc-cCHHHHHHHHHHHhCCCcc-------ccchHHH------HHHHH
Q 000869            2 GGIGKTTLVK-EVARKARKDKLFDR-VVFSEVSQT-IDIKKIQQAIAEKLGLVLQ-------EETESSR------ASRLH   65 (1247)
Q Consensus         2 gGiGKTtla~-~~~~~~~~~~~f~~-~~w~~~~~~-~~~~~~~~~i~~~l~~~~~-------~~~~~~~------~~~~~   65 (1247)
                      .|+|||+||. .++++..    -+. ++++-+++. ....++.+.+...=.+...       ......+      ...+-
T Consensus       171 ~g~GKT~Lal~~I~~q~~----~dv~~V~~~IGeR~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~ap~~a~aiA  246 (497)
T TIGR03324       171 RQTGKTAIAIDTILNQKG----RNVLCIYCAIGQRASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIAPYAATSIG  246 (497)
T ss_pred             CCCCHHHHHHHHHHHhcC----CCcEEEEEEeccCcHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            3999999975 6666532    354 688888765 5567777777654322111       1111111      11222


Q ss_pred             HHHh-cCCeEEEEEeCCCCc
Q 000869           66 EQLK-REEKILIILDNIWKR   84 (1247)
Q Consensus        66 ~~l~-~~~~~LlvlDd~~~~   84 (1247)
                      ++++ .|+++|+|+||+-.-
T Consensus       247 Eyfrd~G~~VLlv~DdlTr~  266 (497)
T TIGR03324       247 EHFMEQGRDVLIVYDDLTQH  266 (497)
T ss_pred             HHHHhCCCCEEEEEcChhHH
Confidence            2332 489999999998543

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 alpha subunit of this apparent second ATP synthase.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=81.08  E-value=2.9  Score=44.76  Aligned_cols=19  Identities=42%  Similarity=0.744  Sum_probs=16.8

Q ss_pred             CCCccHHHHHHHHHHHhhh
Q 000869            1 MGGIGKTTLVKEVARKARK   19 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~   19 (1247)
                      ++|+||||+|+++++....
T Consensus         7 ~pGSGKST~a~~La~~l~~   25 (249)
T TIGR03574         7 LPGVGKSTFSKELAKKLSE   25 (249)
T ss_pred             CCCCCHHHHHHHHHHHHHH
Confidence            5899999999999988764

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.

>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=81.07  E-value=1.3  Score=47.57  Aligned_cols=28  Identities=29%  Similarity=0.260  Sum_probs=19.3

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEE
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSE   30 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~   30 (1247)
                      ++|+||||+|+++...+...  =..+++++
T Consensus         9 ~P~SGKTt~a~~L~~~~~~~--~~~v~~i~   36 (270)
T PF08433_consen    9 LPCSGKTTRAKELKKYLEEK--GKEVVIIS   36 (270)
T ss_dssp             -TTSSHHHHHHHHHHHHHHT--T--EEEE-
T ss_pred             CCCCcHHHHHHHHHHHHHhc--CCEEEEEc
Confidence            48999999999999988752  22355554

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=81.02  E-value=7.2  Score=44.98  Aligned_cols=81  Identities=23%  Similarity=0.400  Sum_probs=47.9

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHHHHhCCCc-------cccchHHH------HHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVL-------QEETESSR------ASRLHEQ   67 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~-------~~~~~~~~------~~~~~~~   67 (1247)
                      +|+|||||+..++.....+. =+.++++-+++. ....++++.+...=+...       .+.....+      ...+-++
T Consensus       153 ~GvGKt~Ll~~i~~~~~~~~-~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~~a~tiAEy  231 (463)
T PRK09280        153 AGVGKTVLIQELINNIAKEH-GGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVALTGLTMAEY  231 (463)
T ss_pred             CCCChhHHHHHHHHHHHhcC-CCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHHHHHHHHH
Confidence            69999999999988766432 245677777644 456677777764322211       11111111      1222333


Q ss_pred             Hh--cCCeEEEEEeCCCC
Q 000869           68 LK--REEKILIILDNIWK   83 (1247)
Q Consensus        68 l~--~~~~~LlvlDd~~~   83 (1247)
                      ++  .|+++||++|++-.
T Consensus       232 frd~~G~~VLll~DslTR  249 (463)
T PRK09280        232 FRDVEGQDVLLFIDNIFR  249 (463)
T ss_pred             HHHhcCCceEEEecchHH
Confidence            32  38999999999854

>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=81.02  E-value=6.5  Score=40.97  Aligned_cols=34  Identities=12%  Similarity=0.054  Sum_probs=22.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCcc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI   35 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~   35 (1247)
                      +|+||||+|+.++........=..+..++.....
T Consensus         8 sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           8 VAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             CCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            6999999999999887631101235556555443

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=81.01  E-value=6.5  Score=45.54  Aligned_cols=82  Identities=21%  Similarity=0.267  Sum_probs=48.7

Q ss_pred             CCccHHHHHHHHHHHhhhccCCC--eEEEEEcCCc-cCHHHHHHHHHHHhCCCcc-------ccchHH------HHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFD--RVVFSEVSQT-IDIKKIQQAIAEKLGLVLQ-------EETESS------RASRLH   65 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~--~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~-------~~~~~~------~~~~~~   65 (1247)
                      .|+|||+|+..++++...++.+.  .++++-+++. ....++++.+...=++...       ......      ....+-
T Consensus       150 ~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGERgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~a~~~a~tiA  229 (458)
T TIGR01041       150 SGLPHNELAAQIARQATVRGEESEFAVVFAAMGITYEEANFFMKDFEETGALERAVVFLNLADDPAVERIVTPRMALTAA  229 (458)
T ss_pred             CCCCHHHHHHHHHHhhcccCCCCceEEEEEEccccchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHHHHHHHHHHH
Confidence            59999999999998765432222  5667777654 4566677766543222111       111111      112233


Q ss_pred             HHHh--cCCeEEEEEeCCCC
Q 000869           66 EQLK--REEKILIILDNIWK   83 (1247)
Q Consensus        66 ~~l~--~~~~~LlvlDd~~~   83 (1247)
                      ++++  .|+++|+++||+-.
T Consensus       230 Eyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       230 EYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHccCCcEEEEEcChhH
Confidence            4444  48999999999854

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=80.91  E-value=7.2  Score=43.77  Aligned_cols=49  Identities=22%  Similarity=0.283  Sum_probs=30.5

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcC-CccCHHHHHHHHHHHhCCCc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVS-QTIDIKKIQQAIAEKLGLVL   52 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~-~~~~~~~~~~~i~~~l~~~~   52 (1247)
                      =|.||||-|.++++.++.+ .+ .+.-|.+. ...-.-+-++.++.+.+.+.
T Consensus       109 QGsGKTTt~~KLA~~lkk~-~~-kvllVaaD~~RpAA~eQL~~La~q~~v~~  158 (451)
T COG0541         109 QGSGKTTTAGKLAKYLKKK-GK-KVLLVAADTYRPAAIEQLKQLAEQVGVPF  158 (451)
T ss_pred             cCCChHhHHHHHHHHHHHc-CC-ceEEEecccCChHHHHHHHHHHHHcCCce
Confidence            4999999999999999863 22 33333332 22334445566667766544

>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=80.88  E-value=1.1  Score=41.99  Aligned_cols=17  Identities=47%  Similarity=0.712  Sum_probs=15.3

Q ss_pred             CCCccHHHHHHHHHHHh
Q 000869            1 MGGIGKTTLVKEVARKA   17 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~   17 (1247)
                      .+|+||||+|+++.+..
T Consensus         6 ~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    6 IPGSGKTTIAKELAERL   22 (129)
T ss_dssp             STTSSHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHH
Confidence            47999999999999885

...

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=80.84  E-value=4.6  Score=38.51  Aligned_cols=40  Identities=28%  Similarity=0.464  Sum_probs=29.5

Q ss_pred             CCCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCcc
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQ   53 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~   53 (1247)
                      .+|.||||+|+.+++..--.       +      .+.-.+.+++|+..|+...
T Consensus         8 ~pGsG~TTva~~lAe~~gl~-------~------vsaG~iFR~~A~e~gmsl~   47 (179)
T COG1102           8 LPGSGKTTVARELAEHLGLK-------L------VSAGTIFREMARERGMSLE   47 (179)
T ss_pred             CCCCChhHHHHHHHHHhCCc-------e------eeccHHHHHHHHHcCCCHH
Confidence            37999999999999886532       1      2234578888988887653

>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=80.79  E-value=2.9  Score=39.95  Aligned_cols=70  Identities=21%  Similarity=0.246  Sum_probs=39.4

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCccCHHHHHHHHHHHhCCCccccchHHHHHHHHHHHhcCCeEEEEEeCC
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlDd~   81 (1247)
                      +|+|||++|+.+++...     ..+.-+.+....+..++....-..-+........      +.+.+  .+..++|||++
T Consensus         8 ~G~GKt~l~~~la~~~~-----~~~~~i~~~~~~~~~dl~g~~~~~~~~~~~~~~~------l~~a~--~~~~il~lDEi   74 (139)
T PF07728_consen    8 PGTGKTTLARELAALLG-----RPVIRINCSSDTTEEDLIGSYDPSNGQFEFKDGP------LVRAM--RKGGILVLDEI   74 (139)
T ss_dssp             SSSSHHHHHHHHHHHHT-----CEEEEEE-TTTSTHHHHHCEEET-TTTTCEEE-C------CCTTH--HEEEEEEESSC
T ss_pred             CCCCHHHHHHHHHHHhh-----cceEEEEeccccccccceeeeeeccccccccccc------ccccc--cceeEEEECCc
Confidence            79999999999999873     3455567777777776554332110000000000      00111  27899999999


Q ss_pred             CCc
Q 000869           82 WKR   84 (1247)
Q Consensus        82 ~~~   84 (1247)
                      +..
T Consensus        75 n~a   77 (139)
T PF07728_consen   75 NRA   77 (139)
T ss_dssp             GG-
T ss_pred             ccC
Confidence            743

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.

>PRK04196 V-type ATP synthase subunit B; Provisional

Probab=80.42  E-value=5.4  Score=46.32  Aligned_cols=82  Identities=21%  Similarity=0.227  Sum_probs=49.1

Q ss_pred             CCccHHHHHHHHHHHhhhccCC--CeEEEEEcCCc-cCHHHHHHHHHHHhCCCcc-------ccchH------HHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLF--DRVVFSEVSQT-IDIKKIQQAIAEKLGLVLQ-------EETES------SRASRLH   65 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f--~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~-------~~~~~------~~~~~~~   65 (1247)
                      .|+|||+|+..++++...++.-  -.++++-+++. ....++++.+...=.+...       .....      .....+-
T Consensus       152 ~G~GKs~L~~~ia~~~~~d~~~~~~v~V~~~iGeRgrEv~e~~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~a~tiA  231 (460)
T PRK04196        152 SGLPHNELAAQIARQAKVLGEEENFAVVFAAMGITFEEANFFMEDFEETGALERSVVFLNLADDPAIERILTPRMALTAA  231 (460)
T ss_pred             CCCCccHHHHHHHHhhhhccCCCceEEEEEEeccccHHHHHHHHHHHhcCCcceEEEEEEcCCCCHHHHHHHHHHHHHHH
Confidence            5999999999999886532110  15677777654 5567777777654222111       11111      1113344


Q ss_pred             HHHh--cCCeEEEEEeCCCC
Q 000869           66 EQLK--REEKILIILDNIWK   83 (1247)
Q Consensus        66 ~~l~--~~~~~LlvlDd~~~   83 (1247)
                      ++++  .|+++|+|+||+-.
T Consensus       232 Eyfr~d~G~~VLli~DslTR  251 (460)
T PRK04196        232 EYLAFEKGMHVLVILTDMTN  251 (460)
T ss_pred             HHHHHhcCCcEEEEEcChHH
Confidence            4444  48999999999854

>PTZ00185 ATPase alpha subunit; Provisional

Probab=80.26  E-value=7.7  Score=44.87  Aligned_cols=82  Identities=18%  Similarity=0.311  Sum_probs=43.4

Q ss_pred             CCccHHHHH-HHHHHHhhhc-----cCCCeEEEEEcCCccC-HHHHHHHHHHHhC-CCcc-------ccchHH------H
Q 000869            2 GGIGKTTLV-KEVARKARKD-----KLFDRVVFSEVSQTID-IKKIQQAIAEKLG-LVLQ-------EETESS------R   60 (1247)
Q Consensus         2 gGiGKTtla-~~~~~~~~~~-----~~f~~~~w~~~~~~~~-~~~~~~~i~~~l~-~~~~-------~~~~~~------~   60 (1247)
                      .|+|||+|| ..++++....     +.-+.++++-+++... ...+.+.+ +.-+ +...       .+....      .
T Consensus       198 ~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L-~e~GaL~~TvVV~AtAdep~~~r~~Apy~  276 (574)
T PTZ00185        198 RQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLL-RSYGALRYTTVMAATAAEPAGLQYLAPYS  276 (574)
T ss_pred             CCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHH-HhcCCccceEEEEECCCCCHHHHHHHHHH
Confidence            589999997 5556665221     1235688888876644 44433333 3322 2111       111111      1


Q ss_pred             HHHHHHHHh-cCCeEEEEEeCCCCc
Q 000869           61 ASRLHEQLK-REEKILIILDNIWKR   84 (1247)
Q Consensus        61 ~~~~~~~l~-~~~~~LlvlDd~~~~   84 (1247)
                      ...+-++++ .++++|+|+||+-.-
T Consensus       277 a~tiAEYFrd~GkdVLiv~DDLTr~  301 (574)
T PTZ00185        277 GVTMGEYFMNRGRHCLCVYDDLSKQ  301 (574)
T ss_pred             HHHHHHHHHHcCCCEEEEEcCchHH
Confidence            112222222 489999999998543

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=80.21  E-value=7.9  Score=42.61  Aligned_cols=40  Identities=15%  Similarity=0.334  Sum_probs=29.3

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc-cCHHHHHHHHH
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIA   45 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~   45 (1247)
                      .|+|||+|+.+++++..    -+.++++-+++. ....++++++-
T Consensus       166 ~G~GKT~L~~~Iak~~~----~dvvVyv~iGERg~Ev~e~l~ef~  206 (369)
T cd01134         166 FGCGKTVIQQSLSKYSN----SDIVIYVGCGERGNEMTEVLEEFP  206 (369)
T ss_pred             CCCChHHHHHHHHhCCC----CCEEEEEEeCCChHHHHHHHHHHH
Confidence            59999999999998643    357888888764 44566666653

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=80.16  E-value=9.9  Score=40.07  Aligned_cols=31  Identities=29%  Similarity=0.415  Sum_probs=23.2

Q ss_pred             CCccHHHHHHHHHHHhhhccCCCeEEEEEcCCc
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      +|.|||++|.+++......  -+.++|++....
T Consensus        29 ~G~GKT~l~~~~~~~~~~~--g~~~~~is~e~~   59 (229)
T TIGR03881        29 PGTGKTIFCLHFAYKGLRD--GDPVIYVTTEES   59 (229)
T ss_pred             CCCChHHHHHHHHHHHHhc--CCeEEEEEccCC
Confidence            6999999999987654322  467899987543

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.

>PRK08233 hypothetical protein; Provisional

Probab=80.14  E-value=4.4  Score=40.90  Aligned_cols=18  Identities=39%  Similarity=0.597  Sum_probs=15.5

Q ss_pred             CCCccHHHHHHHHHHHhh
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      .+|+||||+|+.++....
T Consensus        11 ~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233         11 VSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             CCCCCHHHHHHHHHhhCC
Confidence            379999999999998764

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	1247
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		1e-04
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		3e-04
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		3e-04
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		5e-04

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 57/212 (26%), Positives = 92/212 (43%), Gaps = 42/212 (19%)
Query: 1   MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL-------- 52
           M G GK+ L  E  R    D       FS     + I K      +K GL++        
Sbjct: 155 MAGCGKSVLAAEAVR----DHSLLEGCFSGGVHWVSIGK-----QDKSGLLMKLQNLCMR 205
Query: 53  --QEETESSRASRLHEQ---------LKREEKILIILDNIWKRVDLETVGIPFGDDHRGC 101
             QEE+ S R     E+         L++  + L+ILD++W    L+            C
Sbjct: 206 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQC 258
Query: 102 KLLLTARDRTVLFS-MGSEKNFLVDI-LKEEEAWRLFKLMAGDDVENRELKSTATEVAKA 159
           ++LLT RD++V  S MG +    V+  L  E+   +  L    +++  +L + A  + K 
Sbjct: 259 QILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKE 316
Query: 160 CKGLPIALTTIARALRNKSMP-QWKTTLQQLR 190
           CKG P+ ++ I   LR+   P +W   L+QL+
Sbjct: 317 CKGSPLVVSLIGALLRD--FPNRWAYYLRQLQ 346

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 35/127 (27%), Positives = 66/127 (51%), Gaps = 16/127 (12%)
Query: 68  LKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGSEKNFLVDI- 126
           L++  + L+ILD++W    L+            C++LLT RD++V  S+   K ++V + 
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMGPK-YVVPVE 283
Query: 127 --LKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNKSMP-QWK 183
             L +E+   +  L    +++  +L   A  + K CKG P+ ++ I   LR+   P +W+
Sbjct: 284 SSLGKEKGLEILSLFV--NMKKADLPEQAHSIIKECKGSPLVVSLIGALLRD--FPNRWE 339
Query: 184 TTLQQLR 190
             L+QL+
Sbjct: 340 YYLKQLQ 346

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 43.9 bits (102), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 56/212 (26%), Positives = 91/212 (42%), Gaps = 42/212 (19%)
Query: 1   MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL-------- 52
           M G GK+ L  E  R    D       FS     + I K      +K GL++        
Sbjct: 162 MAGCGKSVLAAEAVR----DHSLLEGCFSGGVHWVSIGK-----QDKSGLLMKLQNLCMR 212
Query: 53  --QEETESSRASRLHEQ---------LKREEKILIILDNIWKRVDLETVGIPFGDDHRGC 101
             QEE+ S R     E+         L++  + L+ILD++W    L+            C
Sbjct: 213 LDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQC 265
Query: 102 KLLLTARDRTVLFS-MGSEKNFLVDI-LKEEEAWRLFKLMAGDDVENRELKSTATEVAKA 159
           ++LLT  D++V  S MG +    V+  L  E+   +  L    +++  +L + A  + K 
Sbjct: 266 QILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFV--NMKKEDLPAEAHSIIKE 323
Query: 160 CKGLPIALTTIARALRNKSMP-QWKTTLQQLR 190
           CKG P+ ++ I   LR+   P +W   L+QL+
Sbjct: 324 CKGSPLVVSLIGALLRD--FPNRWAYYLRQLQ 353

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1247
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	4e-43
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-36
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-07
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-35
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	9e-19
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-18
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-13
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-12
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-18
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	8e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-16
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-09
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-15
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-04
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-15
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-15
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-13
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	4e-09
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	8e-07
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-15
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-12
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-10
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-12
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-13
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	5e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	6e-15
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-09
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-12
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	7e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-14
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	3e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	4e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-09
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-08
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-06
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-04
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-14
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-13
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-12
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-07
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-14
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	8e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-10
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	1e-13
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	4e-11
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-13
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-09
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-04
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-13
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-13
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-07
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-07
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-10
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	4e-13
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	3e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-13
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	7e-11
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	8e-13
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-12
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-08
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-07
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-12
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-09
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-12
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	1e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	7e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-06
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	9e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	7e-09
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-04
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	5e-04
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	1e-11
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-11
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	2e-11
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-08
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-07
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	7e-04
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-11
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	4e-10
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	7e-09
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	6e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	7e-11
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-07
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	4e-06
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-08
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-05
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-10
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-04
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-04
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	6e-09
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	6e-10
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-08
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	5e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-09
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	3e-09
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	4e-04
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	4e-09
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	4e-09
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	3e-07
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-05
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	9e-09
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-04
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-08
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	3e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	1e-08
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	2e-08
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	9e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-07
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-04
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-06
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-05
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	5e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	6e-07
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	2e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	4e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	8e-06
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	4e-06
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	5e-04
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-06
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	5e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	7e-06
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	8e-06
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	2e-05
3e6j_A	229	Variable lymphocyte receptor diversity region; var	9e-05
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	3e-04
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	4e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	6e-04

>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 =  165 bits (418), Expect = 4e-43
 Identities = 42/332 (12%), Positives = 100/332 (30%), Gaps = 31/332 (9%)

Query: 1   MGGIGKTTLVKEVARKAR--KDKLFDRVVFSEVSQT---------IDIKKIQQAIAEKLG 49
             G GK+ +  +   K+       +D +V+ + S T          DI  + ++  + L 
Sbjct: 160 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLN 219

Query: 50  LVLQEETESSRASRLHEQLKREEK-ILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTAR 108
               E   S    R+      +    L + D++ +   +              + L+T R
Sbjct: 220 FPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETIRWA------QELRLRCLVTTR 273

Query: 109 DRTVLFSMGSEKNFL-VDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIAL 167
           D  +  +      F+ V  L+ +E +   +          + +    +  +   G P  L
Sbjct: 274 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATL 333

Query: 168 TTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTI----ELSYNYLEGEKLKNI 223
               ++   K+  +      +L    LV    +   +Y ++    +     L  ++ ++ 
Sbjct: 334 MMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLS-DEDRSA 392

Query: 224 FLLCSLM--GNEIATSDLFKYCMCLGIFKGVDTMEN-ARTNFYALIHQLRDCFLLLGGDN 280
                +M  G +I                  + +++        L  +     LL G   
Sbjct: 393 LAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKR---GALLSGKRM 449

Query: 281 NEKL-SMHDVVRAVAISIACRDQNALVVRNEE 311
                 +  ++      +      A  +   E
Sbjct: 450 PVLTFKIDHIIHMFLKHVVDAQTIANGISILE 481

>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 =  149 bits (377), Expect = 2e-36
 Identities = 78/581 (13%), Positives = 169/581 (29%), Gaps = 205/581 (35%)

Query: 1   MGGIGKTTLVKEVARKARKDKLFDRVVF----SEVSQTIDIKKIQQAIAEKLGLVLQEET 56
           + G GKT +  +V    +     D  +F       +    + ++ Q +  ++       +
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217

Query: 57  ESSRASRLH-EQLKRE----------EKILIILDNIWKRVDLETVGIPFGDDHRGCKLLL 105
           + S   +L    ++ E          E  L++L N+          +        CK+LL
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL-------SCKILL 270

Query: 106 TARDRTVLFSMGSEKNFLVDI------LKEEEAWRLFKLMAGDDVENRELKSTATEVAKA 159
           T R + V   + +     + +      L  +E   L         +  +L        + 
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQ--DLPR------EV 322

Query: 160 CKGLPIALTTIARALRNKSMP-QWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGE 218
               P  L+ IA ++R+      W    + +    L             IE S N LE  
Sbjct: 323 LTTNPRRLSIIAESIRD--GLATWD-NWKHVNCDKLTT----------IIESSLNVLEPA 369

Query: 219 KLKNIFLLCSLMGNEIA-TSDLFKYCMCLGIF----KGVDTMENARTNFYALIHQLRDCF 273
           + + +F   S+        + L      L +        D M         ++++L    
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTIL------LSLIWFDVIKSDVMV--------VVNKLHKYS 415

Query: 274 LLLGGDNNEKLSMHDVVRAVAISIACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSS 333
           L+        +S+      + + +  + +N                           + +
Sbjct: 416 LVEKQPKESTISIPS----IYLELKVKLEN---------------------------EYA 444

Query: 334 IHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSID-- 391
           +H  +  ++       Y          N+P+ F +        D        +PP +D  
Sbjct: 445 LHRSI--VDH------Y----------NIPKTFDSD-------DL-------IPPYLDQY 472

Query: 392 -------HLLNLQ---------TLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEEL 435
                  HL N++          + LD                    F           L
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMVFLD------------------FRF-----------L 503

Query: 436 GQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDEL 495
            Q  K+RH   +      ++  N +  L +  + Y+            N       ++ +
Sbjct: 504 EQ--KIRHDSTAWNASGSIL--NTLQQL-KFYKPYIC----------DNDPKYERLVNAI 548

Query: 496 MH-LPRLTTLEVHVKNDNIL------PEGFF----ARKLER 525
           +  LP++    +  K  ++L       +        ++++R
Sbjct: 549 LDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589

>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 = 67.2 bits (163), Expect = 3e-11
 Identities = 89/658 (13%), Positives = 197/658 (29%), Gaps = 202/658 (30%)

Query: 67  QLKREEKILIILDNIWKRVDLETVGIPFGDDHRG------CKLLLTARDR--------TV 112
           Q + ++ + +  D      + +   +   D  +          ++ ++D           
Sbjct: 15  QYQYKDILSVFEDAFVD--NFDCKDVQ--DMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 113 LFSMGSE--KNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACK------GLP 164
           L S   E  + F+ ++L+    +    LM+    E R+  S  T +    +         
Sbjct: 71  LLSKQEEMVQKFVEEVLRINYKF----LMSPIKTEQRQ-PSMMTRMYIEQRDRLYNDNQV 125

Query: 165 IALTTIARALRNKSMPQWKTTLQQLR-MPSLVNFG--GVPAEAYLTIELSYNYLEGEKLK 221
            A   ++R    +   + +  L +LR   +++  G  G                 G K  
Sbjct: 126 FAKYNVSRL---QPYLKLRQALLELRPAKNVLIDGVLGS----------------G-K-- 163

Query: 222 NIFLLCSLMGNEIATSDLFKYCMCLGIF----KGVDTMENARTNFYALIHQLRDCFLLLG 277
                 + +  ++  S   +  M   IF    K  ++ E        L++Q+ D      
Sbjct: 164 ------TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI-DPNWTSR 216

Query: 278 GDN--NEKLSMHDVVRAVAISIACRD-QNALVV-RNEEVWEWPDEDALR-KCYA-ISIRD 331
            D+  N KL +H +   +   +  +  +N L+V  N  V      +A    C   ++ R 
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN--VQNAKAWNAFNLSCKILLTTRF 274

Query: 332 SSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVV-DFCRMQFFSLPPSI 390
             + + L              +  + + ++      T  +   ++  +   +   LP  +
Sbjct: 275 KQVTDFLSA------------ATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREV 322

Query: 391 DHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCF 450
                 +           ++II +                + + L      +H+   NC 
Sbjct: 323 LTTNPRR-----------LSIIAES---------------IRDGLATWDNWKHV---NCD 353

Query: 451 KLKVIAPNVI-SSLIRLEELYMSNCFVE------------------WEDEGPN------S 485
           KL      +I SSL  LE       F                    W D   +      +
Sbjct: 354 KLT----TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409

Query: 486 ETINSRL------DELMHLPRLTTLEVHVKNDN-------ILPEGFFARKLERFKISVGE 532
           +     L      +  + +P +  LE+ VK +N       I+      +  +   +    
Sbjct: 410 KLHKYSLVEKQPKESTISIPSI-YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468

Query: 533 A-----AFLPF-----GATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI 582
                 + +               FR+   +F+  D    R L+ K+   + +      I
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFRM---VFL--D---FRFLEQKIRHDSTAWNASGSI 520

Query: 583 KNV--------EYLCLD------KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIV 626
            N          Y+C +       +  I + L +++        +L       +  ++
Sbjct: 521 LNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEE-------NLI---CSKYTDLL 568

>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 = 63.3 bits (153), Expect = 5e-10
 Identities = 96/606 (15%), Positives = 186/606 (30%), Gaps = 182/606 (30%)

Query: 582  IKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPD------FMCIVDSMERVPLH 635
            + N +  C D     K++L +       ++ H+ +  +        F  ++   E +   
Sbjct: 30   VDNFD--CKDVQDMPKSILSK------EEIDHIIMSKDAVSGTLRLFWTLLSKQEEM--V 79

Query: 636  DAFPLLESLNL-YNLMKLERI----------------CQDRL--SVQSFNELKTIRVEHC 676
              F + E L + Y  + +  I                 +DRL    Q F +    R++  
Sbjct: 80   QKF-VEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY 137

Query: 677  GQL----------SNIFL---LSAAK-CLPRLETIAVINCRNIQ-----EIFAVGGGDVV 717
             +L           N+ +   L + K  +     + V     +Q     +IF +   +  
Sbjct: 138  LKLRQALLELRPAKNVLIDGVLGSGKTWV----ALDVCLSYKVQCKMDFKIFWLNLKNCN 193

Query: 718  IDHQKIEFGQLRTLCLGNLPVLRSFCR---------EVEKNRQAQGLQETCYNE---I-- 763
                 +E   L+ L     P   S               +    + L+   Y     +  
Sbjct: 194  SPETVLE--MLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251

Query: 764  ----SRLKDKLDTSSPLL---NEKVVFPSLEALDLRQINVEKIW----HDQ---LSAAMF 809
                ++  +  + S  +L     K V   L A     I+++        D+   L     
Sbjct: 252  NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL 311

Query: 810  PC-FQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPN 868
             C  Q+L R +L   P+   + + S+        + +   C++L  II    + + + P 
Sbjct: 312  DCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES--SLNVLEPA 369

Query: 869  ---------FVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVT----VFA 915
                      VFP                 P  H        +L+++  D +     V  
Sbjct: 370  EYRKMFDRLSVFP-----------------PSAHIPT----ILLSLIWFDVIKSDVMVVV 408

Query: 916  SELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLK 975
            ++L  +  + ++ K  T +  S++   KV     E  L+     ++ H N P+       
Sbjct: 409  NKLHKYSLVEKQPKESTISIPSIYLELKV-KLENEYALH---RSIVDHYNIPKTFDSDDL 464

Query: 976  VLRLADD--------HVSAAG-------FPLGLLE-RFNNLE-KLRLDGCSC-------- 1010
            +    D         H+           F +  L+ RF  LE K+R D  +         
Sbjct: 465  IPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF--LEQKIRHDSTAWNASGSILN 522

Query: 1011 ---------KEILSNDGH-----------LDKHGGKLAQIKSLRLVRL---NDLNQLWKE 1047
                       I  ND             L K    L   K   L+R+    +   +++E
Sbjct: 523  TLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEE 582

Query: 1048 -DSQMD 1052
               Q+ 
Sbjct: 583  AHKQVQ 588

>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 = 57.2 bits (137), Expect = 4e-08
 Identities = 95/644 (14%), Positives = 197/644 (30%), Gaps = 176/644 (27%)

Query: 286 MHDVVRAVAISIACRD-QNAL--VVRNEEV---WEWPDED-ALRKCYAI--SIRDSSIHE 336
           +     A   +  C+D Q+    ++  EE+       D      + +    S ++  + +
Sbjct: 22  LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81

Query: 337 LLEGLECPQLEFLY----MDSNGSSVE----INVPEKFFTGMKKLKVVDFCRMQ-FFSLP 387
            +E +     +FL      +    S+     I   ++ +   +     +  R+Q +  L 
Sbjct: 82  FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL- 140

Query: 388 PSIDHLLNLQTLCLDQCILGDVAI-----IGK-------LKNLEILSFSGSGIVKLPEEL 435
                LL L+          +V I      GK         + ++       I       
Sbjct: 141 --RQALLELRPA-------KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKI------- 184

Query: 436 GQLTKLRH-LDLSNCFKLKVIAPNVISSLIRLEELY--MSNCFVEWEDEGPN----SETI 488
                    L+L NC       P  +  L  L++L   +   +    D   N      +I
Sbjct: 185 -------FWLNLKNCNS-----PETV--LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230

Query: 489 NSRLDELMHLPRL-TTLEV--HVKNDNILPEGFFARKLERF----KISVGEAAFLPFGAT 541
            + L  L+        L V  +V+N               F    KI +          T
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQNAKAW---------NAFNLSCKILL----------T 271

Query: 542 SNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLF 601
           +          +     + T   + L  +S T++  +++ +       L K    +    
Sbjct: 272 TRFKQ------VTDFLSAATTTHISLDHHSMTLTPDEVKSL-------LLKYLDCR---- 314

Query: 602 ELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLS 661
                    L    +  NP  + I+       + D     ++    N  KL  I +  L+
Sbjct: 315 ------PQDLPREVLTTNPRRLSIIAES----IRDGLATWDNWKHVNCDKLTTIIESSLN 364

Query: 662 VQSFNELKTIRVEHCGQLSNIFLLSA---AKCLPRL---------ETIA-------VINC 702
           V    E +    +   +LS +F  SA      L  +           +        ++  
Sbjct: 365 VLEPAEYR----KMFDRLS-VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419

Query: 703 RNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNE 762
           +  +   ++    + +  +      L    + +  + ++F  +   +     L +  Y+ 
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD---DLIPPYLDQYFYSH 476

Query: 763 ISR-LKDKLDTSSPLLNEKV-VFPSLEALDLRQINVEKIWHDQLSAAMFPCFQN-LTRLI 819
           I   LK+          E++ +F  +  LD R +  +KI HD  +        N L +L 
Sbjct: 477 IGHHLKNIEHP------ERMTLFRMV-FLDFRFLE-QKIRHDSTAWNASGSILNTLQQLK 528

Query: 820 LW---ICPK-----------LKYVFSAS--MLRSFEHLQHLEIA 847
            +   IC             L ++      ++ S ++   L IA
Sbjct: 529 FYKPYICDNDPKYERLVNAILDFLPKIEENLICS-KYTDLLRIA 571

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 55.6 bits (133), Expect = 1e-07
 Identities = 72/487 (14%), Positives = 134/487 (27%), Gaps = 154/487 (31%)

Query: 823  CPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQV-TPNFVFPGLTTLRLIG 881
               +  VF  + + +F+  + ++    +  + I+SK   D  + + +       TLRL  
Sbjct: 18   YKDILSVFEDAFVDNFD-CKDVQ----DMPKSILSKEEIDHIIMSKD---AVSGTLRLFW 69

Query: 882  LPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASEL------FHFCKISEENKLDTPAR 935
                K                      + V  F  E+      F    I  E +   P+ 
Sbjct: 70   TLLSKQ--------------------EEMVQKFVEEVLRINYKFLMSPIKTEQR--QPSM 107

Query: 936  QSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLE 995
             +  ++E+                 +++ N    +F    V RL              L+
Sbjct: 108  MTRMYIEQRDR--------------LYNDN---QVFAKYNVSRLQP-----------YLK 139

Query: 996  RFNNLEKLR---------LDGC--SC--KEILSNDGHLDKHGGK-----LAQIKSLRLVR 1037
                L +LR         + G   +    ++  +     K   K     L    S   V 
Sbjct: 140  LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV- 198

Query: 1038 LNDLNQLW--------KEDSQMDSMFQYVDDV------LIHG---CDSLLILLPSSSVSF 1080
            L  L +L                ++   +  +      L+      + LL+L    +V  
Sbjct: 199  LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL---LNV-- 253

Query: 1081 WNLTSLEV--SSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEI-- 1136
             N  +      SCK L+          L A     +         +      L  +E+  
Sbjct: 254  QNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI--------SLDHHSMTLTPDEVKS 305

Query: 1137 VFSKLKRLSLVDLDSLASFCSGN---------YIFKFPS-LEYLFVVGCPKMNIFTTGEL 1186
            +  K       DL       + N          I    +  +    V C K+   T  E 
Sbjct: 306  LLLKYLDCRPQDLPREV--LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT--TIIES 361

Query: 1187 S----TPPRVDVMYRDTG--------PP-----CWDGDLNTTIR----QLHRVKLLERSS 1225
            S     P     M+            P       W   + + +     +LH+  L+E+  
Sbjct: 362  SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK-Q 420

Query: 1226 SYSNTYY 1232
               +T  
Sbjct: 421  PKESTIS 427

>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 = 2e-07
 Identities = 87/584 (14%), Positives = 170/584 (29%), Gaps = 157/584 (26%)

Query: 700  INCRNIQEIFAVGGGDVVIDH---QKIEFGQLR----TLCLGNLPVLRSFCREV-EKNRQ 751
             +C+++Q++         IDH    K           TL      +++ F  EV   N +
Sbjct: 33   FDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK 92

Query: 752  --AQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINV---EKIWHDQLSA 806
                 ++          +  ++    L N+  VF           NV   +     +L  
Sbjct: 93   FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY--------NVSRLQPYL--KLRQ 142

Query: 807  AMFPCFQNLTRLILWICPKL-------KYVFSASMLRSFEHLQH-------LEIACCERL 852
            A+      L R    +   +       K   +  +  S++           L +  C   
Sbjct: 143  AL----LEL-RPAKNVL--IDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195

Query: 853  QEIISKGGT-DDQVTPNFVFPGLTTLRLI-----GLPKLKSLYPGMHTSEWP-ALKVL-N 904
            + ++        Q+ PN+      +  +         +L+ L   + +  +   L VL N
Sbjct: 196  ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRL---LKSKPYENCLLVLLN 252

Query: 905  VLACDQVTVFASELFHF-CKI-------SEENKLDTPARQSLFFLEKVFPNLEE------ 950
            V   +         F+  CKI          + L   A  +   L+     L        
Sbjct: 253  V--QNAKAW---NAFNLSCKILLTTRFKQVTDFLS-AATTTHISLDHHSMTLTPDEVKSL 306

Query: 951  ----LGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLD 1006
                L    +D+        P+ L  S+    + D            L  ++N + +  D
Sbjct: 307  LLKYLDCRPQDLPREVLTTNPRRL--SIIAESIRDG-----------LATWDNWKHVNCD 353

Query: 1007 GCSCKEILSNDGHLDKHGGKLAQI--KSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIH 1064
                               KL  I   SL ++   +  +++   S    +F       I 
Sbjct: 354  -------------------KLTTIIESSLNVLEPAEYRKMFDRLS----VFP--PSAHI- 387

Query: 1065 GCDSLLILLPSSSVS-FW-NLTSLEVSSCKKLINLVASSAAKSLVAL-VKMQVFGCRAMT 1121
                     P+  +S  W ++   +V      + +V      SLV    K       ++ 
Sbjct: 388  ---------PTILLSLIWFDVIKSDV------MVVVNKLHKYSLVEKQPKESTISIPSIY 432

Query: 1122 QVVKSEG-NQLAKEEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEY-LFVVGCPKMN 1179
              +K +  N+ A    +          D D L       Y +    + + L        N
Sbjct: 433  LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH--IGHHL-------KN 483

Query: 1180 IFTTGELSTPPRVDVMYR--------DTGPPCWDGDLNTTIRQL 1215
            I     ++    V + +R        D+      G +  T++QL
Sbjct: 484  IEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527

>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 = 52.5 bits (125), Expect = 9e-07
 Identities = 97/584 (16%), Positives = 170/584 (29%), Gaps = 164/584 (28%)

Query: 720  HQKIEFGQLRTLCLGNLPVLR-SF-----CREVEKN-RQAQGLQETCYNEISRLKDKLDT 772
            H   E G+ +      L V   +F     C++V+   +    L +   + I   KD +  
Sbjct: 6    HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSI--LSKEEIDHIIMSKDAVSG 63

Query: 773  SSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSA 832
            +  L            L  +Q  + + + +++    +           ++   +K     
Sbjct: 64   TLRLF---------WTLLSKQEEMVQKFVEEVLRINYK----------FLMSPIKTEQRQ 104

Query: 833  SMLRSFEHLQHLEIACCERLQEIISKGGTDDQV-TPNFV--FPGLTTLRLIGLPKLKS-- 887
              + +  +     I   +RL         D+QV     V        LR   L +L+   
Sbjct: 105  PSMMTRMY-----IEQRDRLY-------NDNQVFAKYNVSRLQPYLKLR-QALLELRPAK 151

Query: 888  ---LYPGMHTS--EWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLE 942
               +  G+  S   W AL V    +         ++F +  +   N  +T        L 
Sbjct: 152  NVLID-GVLGSGKTWVALDVCL--SYKVQCKMDFKIF-WLNLKNCNSPETVLEMLQKLLY 207

Query: 943  KVFPNLEELGLNGKDIRMIWHG--NFPQHLFG------SLKVLRLADDHVSAAGFPLGLL 994
            ++ PN      +  +I++  H      + L         L VL     +V  A       
Sbjct: 208  QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL----LNVQNAK----AW 259

Query: 995  ERFNNLEKLRLDGCSCK-----------EILSNDGH----LDKHGGKLAQIKSLRL---- 1035
              FN          SCK           + LS        LD H   L   +   L    
Sbjct: 260  NAFNL---------SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKY 310

Query: 1036 --VRLNDL------------NQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSFW 1081
               R  DL            + + +      + +     V    CD L  ++ SS     
Sbjct: 311  LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV---NCDKLTTIIESS----- 362

Query: 1082 NLTSLEVSSCKKLINLVASSAAKSLV-----ALVKMQVFGCRAMTQVVKSEGNQLAKEEI 1136
             L  LE +  +K+           L      A +   +        V+KS+        +
Sbjct: 363  -LNVLEPAEYRKMF--------DRLSVFPPSAHIPTILL-SLIWFDVIKSD------VMV 406

Query: 1137 VFSKLKRLSLVDLDSLASFCSGNYIFKFPSLEYLFVVGCPKMNIFTTGEL--------ST 1188
            V +KL + SLV+                PS+     V            L        + 
Sbjct: 407  VVNKLHKYSLVEKQPK------ESTISIPSIYLELKVKLENE-----YALHRSIVDHYNI 455

Query: 1189 PPRVDVMYRDTGPPCWDGDLNTTI-RQLHRVKLLERSSSYSNTY 1231
            P   D    D  PP  D    + I   L  ++  ER + +   +
Sbjct: 456  PKTFD--SDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497

>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 =  142 bits (360), Expect = 2e-35
 Identities = 65/434 (14%), Positives = 139/434 (32%), Gaps = 50/434 (11%)

Query: 1   MGGIGKTTLVKEVARKARKDKLF--DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETES 58
           M G GK+ L  E  R     +      V +  V +      + + +      + Q+E+ S
Sbjct: 155 MAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMK-LQNLCTRLDQDESFS 213

Query: 59  SRASRLHEQLK---------REEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARD 109
            R     E+ K         +  + L+ILD++W    L+            C++LLT RD
Sbjct: 214 QRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRD 266

Query: 110 RTVLFSMGSEKN--FLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIAL 167
           ++V  S+   K    +   L +E+   +  L         +L   A  + K CKG P+ +
Sbjct: 267 KSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA--DLPEQAHSIIKECKGSPLVV 324

Query: 168 TTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTI----ELSYNYLEGEKLKNI 223
           + I   LR+    +W+  L+QL+           +  Y  +     +S   L  + +K+ 
Sbjct: 325 SLIGALLRDFPN-RWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED-IKDY 382

Query: 224 FLLCSLM--GNEIATSDLFKYCMCLGIFKGVDTMENARTNFYALIHQLRDCFLLLGGDNN 281
           +   S++    ++ T  L                E         +++     L    +  
Sbjct: 383 YTDLSILQKDVKVPTKVLCILWDMET--------EEVEDILQEFVNK---SLLFCDRNGK 431

Query: 282 EKL-SMHDVVRAVAISIACRD-----QNALVVRNEEVWEWPDEDALRKCYAISIRDSSIH 335
                +HD+         C       +  +                  C  +   +   +
Sbjct: 432 SFRYYLHDLQVDFLTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQEDC--MYWYNFLAY 489

Query: 336 ELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLN 395
            +       +L  L    +    +  +        + ++       +  ++  +    L+
Sbjct: 490 HMASAKMHKELCALMFSLDWIKAKTELVGPAHLIHEFVEYRHILDEKDCAVSENFQEFLS 549

Query: 396 LQTLCLDQCILGDV 409
           L    L +    ++
Sbjct: 550 LNGHLLGRQPFPNI 563

>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 = 91.8 bits (228), Expect = 9e-19
 Identities = 52/245 (21%), Positives = 95/245 (38%), Gaps = 27/245 (11%)

Query: 1   MGGIGKTTLVKEVARKAR--KDKLFDRVVFSEVSQTI--DIKKIQQAIAEKLGLV----- 51
           M G GK+ L  E  R     +      V +  + +     +    Q +  +L        
Sbjct: 155 MAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQ 214

Query: 52  -LQEETESSRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDR 110
            L    E ++       L++  + L+ILD++W    L+            C++LLT RD+
Sbjct: 215 RLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTTRDK 267

Query: 111 TVLFSMGSEKNFLV--DILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALT 168
           +V  S+   K+ +     L  E+   +  L      E  +L + A  + K CKG P+ ++
Sbjct: 268 SVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE--DLPAEAHSIIKECKGSPLVVS 325

Query: 169 TIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTI----ELSYNYLEGEKLKNIF 224
            I   LR+    +W   L+QL+           +  Y  +     +S   L  E +K+ +
Sbjct: 326 LIGALLRDFPN-RWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLR-EDIKDYY 383

Query: 225 LLCSL 229
              S+
Sbjct: 384 TDLSI 388

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 90.1 bits (224), Expect = 2e-18
 Identities = 102/611 (16%), Positives = 200/611 (32%), Gaps = 102/611 (16%)

Query: 343 CPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLC 400
            P L+ L +  N    E+  + +K F     L  +         +         NL TL 
Sbjct: 72  LPMLKVLNLQHN----ELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLD 127

Query: 401 LDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEE---LGQLTKLRHLDLSNCFKLKVI 455
           L    L         +L+NL+ L  S + I  L  E   +   + L+ L+LS+  ++K  
Sbjct: 128 LSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSN-QIKEF 186

Query: 456 APNVISSLIRLEELYMS-NCFVEWEDEGPNSETINSRLDEL-----------------MH 497
           +P    ++ RL  L+++         E    E  N+ +  L                 + 
Sbjct: 187 SPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLK 246

Query: 498 LPRLTTLEVHVKNDNILPEGFFA--RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFM 555
              LT L++   N N++    FA   +LE F +       L   +      F +      
Sbjct: 247 WTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHG--LFNVR----Y 300

Query: 556 INDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLK 612
           +N   +     + L S   I     + +K +E+L ++   + GIK+ +F     G   LK
Sbjct: 301 LNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMF----TGLINLK 356

Query: 613 HLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIR 672
           +L + N+  F  +        +  A   L  LNL    K+ +I  +  +      L+ + 
Sbjct: 357 YLSLSNS--FTSLRTLTNETFVSLAHSPLHILNLTK-NKISKI--ESDAFSWLGHLEVLD 411

Query: 673 VEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDV------VIDHQKIEFG 726
           +    ++         + L  +  I +       ++       V      ++    ++  
Sbjct: 412 LGLN-EIGQELTGQEWRGLENIFEIYLSYN-KYLQLTRNSFALVPSLQRLMLRRVALKNV 469

Query: 727 QLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSL 786
                    L  L               L     N I+ + D +               L
Sbjct: 470 DSSPSPFQPLRNLTILD-----------LS---NNNIANINDDMLEG---------LEKL 506

Query: 787 EALDLRQINVEKIWHDQLSAAMFPCFQNLTRL-ILWICP-KLKYVFSASMLRSFEHLQHL 844
           E LDL+  N+ ++W            + L+ L IL +       +    + +    L+ +
Sbjct: 507 EILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEI-PVEVFKDLFELKII 565

Query: 845 EIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLP--KLKSLYPGMHTSEWPALKV 902
           ++     L  + +            VF    +L+ + L    + S+   +    +  L  
Sbjct: 566 DLGLN-NLNTLPAS-----------VFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTE 613

Query: 903 LNV----LACD 909
           L++      C 
Sbjct: 614 LDMRFNPFDCT 624

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 73.9 bits (182), Expect = 2e-13
 Identities = 54/326 (16%), Positives = 101/326 (30%), Gaps = 68/326 (20%)

Query: 335 HELLEGLECPQLEFLYMDSNGSSVEIN-VPEKFFTGMKKLKVVDFCRMQFFSLPP--SID 391
           +E    L    L  L +  N    +I+ +    F+ +  L+V+D    +           
Sbjct: 372 NETFVSLAHSPLHILNLTKN----KISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWR 427

Query: 392 HLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSG---SGIVKLPEELGQLTKLRHLDL 446
            L N+  + L       +       + +L+ L         +   P     L  L  LDL
Sbjct: 428 GLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDL 487

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEV 506
           SN   +  I  +++  L +LE L + +  +    +  N       +  L  L  L  L  
Sbjct: 488 SNN-NIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGP---IYFLKGLSHLHIL-- 541

Query: 507 HVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLK 566
                           LE           +P                    D   L+ + 
Sbjct: 542 ---------------NLESNGFD-----EIPVEV---------------FKDLFELKIID 566

Query: 567 LKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFM 623
           L LN+  T+ +       +++ L L    +  ++  +F      F  L  L ++ NP F 
Sbjct: 567 LGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFG---PAFRNLTELDMRFNP-FD 622

Query: 624 CIVDSMERVPLHDAFPLLESLNLYNL 649
           C  +S+           +  +N  + 
Sbjct: 623 CTCESIA--------WFVNWINETHT 640

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 70.8 bits (174), Expect = 2e-12
 Identities = 67/402 (16%), Positives = 126/402 (31%), Gaps = 84/402 (20%)

Query: 328 SIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMK--KLKVVDFCRMQFFS 385
            +  S   +L   L    +  L + ++  S         F G+K   L ++D        
Sbjct: 206 QLGPSLTEKLCLELANTSIRNLSLSNSQLS---TTSNTTFLGLKWTNLTMLDLSYNNLNV 262

Query: 386 LPP-SIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKL----------P 432
           +   S   L  L+   L+   +  +    +  L N+  L+   S   +            
Sbjct: 263 VGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDD 322

Query: 433 EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPN--SETINS 490
                L  L HL++ +   +  I  N+ + LI L+ L +SN F               +S
Sbjct: 323 FSFQWLKCLEHLNMEDN-DIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHS 381

Query: 491 RLDEL---------------MHLPRLTTLEVHVKNDN----ILPEGFFA--RKLERFKIS 529
            L  L                 L  L  L++     N     L    +     +    +S
Sbjct: 382 PLHILNLTKNKISKIESDAFSWLGHLEVLDL---GLNEIGQELTGQEWRGLENIFEIYLS 438

Query: 530 VGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKL---KLNSTTISSKKLEGIKNVE 586
                +  +   + ++   +           +L+ L L    L +   S    + ++N+ 
Sbjct: 439 -----YNKYLQLTRNSFALVP----------SLQRLMLRRVALKNVDSSPSPFQPLRNLT 483

Query: 587 YLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESL 644
            L L    +  I + +     EG  +L+ L +Q+N        ++ R+    A P     
Sbjct: 484 ILDLSNNNIANINDDML----EGLEKLEILDLQHN--------NLARLW-KHANPGGPIY 530

Query: 645 NLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLS 686
            L  L  L  +    L     N    I VE    L  + ++ 
Sbjct: 531 FLKGLSHLHIL---NL---ESNGFDEIPVEVFKDLFELKIID 566

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 68.1 bits (167), Expect = 1e-11
 Identities = 108/706 (15%), Positives = 216/706 (30%), Gaps = 173/706 (24%)

Query: 415  LKNLEILSFSGSGIVKL-PEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
              N+ +L+ + + + +L      + ++L  LD+     +  + P +   L  L+ L + +
Sbjct: 24   PTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFN-TISKLEPELCQKLPMLKVLNLQH 82

Query: 474  CFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNI--LPEGFFA--RKLERFKIS 529
              +    +                   LT L  H+ +++I  +    F   + L    +S
Sbjct: 83   NELSQLSDK-----------TFAFCTNLTEL--HLMSNSIQKIKNNPFVKQKNLITLDLS 129

Query: 530  VGEAAFLPFGATSNDACFRLSW-PLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNV-- 585
                         N     LS   L      E L+ L L  N    + S++L+   N   
Sbjct: 130  ------------HN----GLSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFANSSL 173

Query: 586  EYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLES 643
            + L L   +++      F        +L  L + N      +    E++ L  A   + +
Sbjct: 174  KKLELSSNQIKEFSPGCF----HAIGRLFGLFLNNVQLGPSL---TEKLCLELANTSIRN 226

Query: 644  LNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCR 703
            L+L N  +L            +  L  + + +   L+ +    +   LP+LE   +    
Sbjct: 227  LSLSN-SQLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVV-GNDSFAWLPQLEYFFLEYN- 282

Query: 704  NIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEI 763
            NIQ +F+                      L  L  +R     ++++   Q +       +
Sbjct: 283  NIQHLFSH--------------------SLHGLFNVRYL--NLKRSFTKQSIS---LASL 317

Query: 764  SRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRL----- 818
             ++ D                 LE L++          + +       F  L  L     
Sbjct: 318  PKIDD-----FSFQW----LKCLEHLNME--------DNDIPGIKSNMFTGLINLKYLSL 360

Query: 819  ---ILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLT 875
                  +       F +        L  L +    ++ +I S             F  L 
Sbjct: 361  SNSFTSLRTLTNETFVSLAHSP---LHILNLTKN-KISKIESD-----------AFSWLG 405

Query: 876  TLRLIGLP--KLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTP 933
             L ++ L   ++     G        +  + +                      NK    
Sbjct: 406  HLEVLDLGLNEIGQELTGQEWRGLENIFEIYL--------------------SYNKYLQL 445

Query: 934  ARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGL 993
             R S   +    P+L+ L L    ++ +     P     +L +L L++++++       +
Sbjct: 446  TRNSFALV----PSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIA--NINDDM 499

Query: 994  LERFNNLEKLRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDL--NQLWKEDSQM 1051
            LE    LE L L   +    L+        GG +  +K L  + + +L  N         
Sbjct: 500  LEGLEKLEILDLQHNN----LARLWKHANPGGPIYFLKGLSHLHILNLESNGF------- 548

Query: 1052 DSMFQYVDDVLIHGCDSLLIL---------LPSSSVSFWNLTSLEV 1088
                  +   +      L I+         LP+S   F N  SL+ 
Sbjct: 549  ----DEIPVEVFKDLFELKIIDLGLNNLNTLPAS--VFNNQVSLKS 588

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 85.0 bits (211), Expect = 9e-18
 Identities = 24/166 (14%), Positives = 52/166 (31%), Gaps = 12/166 (7%)

Query: 319 DALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTG-MKKLKVVD 377
           D L +       D +                 +++          +            ++
Sbjct: 30  DVLSQWQRHYNADRNRWHSAWRQ--ANSNNPQIETRTGRALKATADLLEDATQPGRVALE 87

Query: 378 FCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELG 436
              +     P     L +LQ + +D   L ++   + +   LE L+ + + +  LP  + 
Sbjct: 88  LRSVPLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPASIA 147

Query: 437 QLTKLRHLDLSNCFKLKVI--------APNVISSLIRLEELYMSNC 474
            L +LR L +  C +L  +        A      L+ L+ L +   
Sbjct: 148 SLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT 193

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 80.8 bits (200), Expect = 2e-16
 Identities = 26/91 (28%), Positives = 40/91 (43%), Gaps = 2/91 (2%)

Query: 385 SLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRH 443
                   L+NLQ+L L+   +  + A I  L+NL+ L    S +  L   +  L KL  
Sbjct: 174 DASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEE 233

Query: 444 LDLSNCFKLKVIAPNVISSLIRLEELYMSNC 474
           LDL  C  L+   P +      L+ L + +C
Sbjct: 234 LDLRGCTALRNY-PPIFGGRAPLKRLILKDC 263

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 56.1 bits (136), Expect = 3e-08
 Identities = 25/128 (19%), Positives = 45/128 (35%), Gaps = 9/128 (7%)

Query: 328 SIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-S 385
            +  + I  L   +     L+ L + ++  S    +       + KL+ +D        +
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRNSPLSA---LGPAI-HHLPKLEELDLRGCTALRN 244

Query: 386 LPPSIDHLLNLQTLCLDQC-ILGDV-AIIGKLKNLEILSFSG-SGIVKLPEELGQLTKLR 442
            PP       L+ L L  C  L  +   I +L  LE L   G   + +LP  + QL    
Sbjct: 245 YPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANC 304

Query: 443 HLDLSNCF 450
            + +    
Sbjct: 305 IILVPPHL 312

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 45.3 bits (108), Expect = 8e-05
 Identities = 26/112 (23%), Positives = 43/112 (38%), Gaps = 7/112 (6%)

Query: 328 SIRDSSIHELLEGL-ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRM-QFFS 385
            IR+S +  L   +   P+LE L +    +      P  F  G   LK +         +
Sbjct: 212 KIRNSPLSALGPAIHHLPKLEELDLRGCTALRNY--PPIF-GGRAPLKRLILKDCSNLLT 268

Query: 386 LPPSIDHLLNLQTLCLDQCI-LGDV-AIIGKLKNLEILSFSGSGIVKLPEEL 435
           LP  I  L  L+ L L  C+ L  + ++I +L    I+        +L +  
Sbjct: 269 LPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHR 320

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 82.9 bits (205), Expect = 2e-16
 Identities = 68/391 (17%), Positives = 128/391 (32%), Gaps = 61/391 (15%)

Query: 344 PQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCL 401
             ++ L +  N    +I  +          L+V+     +  ++       L +L+ L L
Sbjct: 26  AAMKSLDLSFN----KITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDL 81

Query: 402 DQCILGDV--AIIGKLKNLEILSFSGSGIVKLPE--ELGQLTKLRHLDLSNCFKLKVIAP 457
               L  +  +  G L +L+ L+  G+    L        LT L+ L + N      I  
Sbjct: 82  SDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRR 141

Query: 458 NVISSLIRLEELYMSNCFVEWEDEGPNS-ETINSRLDELMHLPRLTTLEVHVKNDNILPE 516
              + L  L EL +             S     S    L  +  +  L +H+     L E
Sbjct: 142 IDFAGLTSLNELEIKA----------LSLRNYQS--QSLKSIRDIHHLTLHLSESAFLLE 189

Query: 517 GFFA-----RKLERFKISVGEAAFLPFGAT----------------SNDACFRLSWPLFM 555
            F       R LE    ++    F P                    ++++   L   L  
Sbjct: 190 IFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRY 249

Query: 556 INDSETLRTLKLKLNSTT----ISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFS-- 609
           I +   +      LN         S  +  +  VE + + +L   +  LF   +  +S  
Sbjct: 250 ILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLL 309

Query: 610 -QLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNL-YNLMKLERICQDRLSVQSFNE 667
            ++K + V+N+      V  +           LE L+L  NLM  E   ++     ++  
Sbjct: 310 EKVKRITVENSK-----VFLVPC-SFSQHLKSLEFLDLSENLMV-EEYLKNSACKGAWPS 362

Query: 668 LKTIRVEHCGQLSNIFLLSAA-KCLPRLETI 697
           L+T+ +     L ++         L  L ++
Sbjct: 363 LQTLVLSQN-HLRSMQKTGEILLTLKNLTSL 392

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 72.5 bits (178), Expect = 4e-13
 Identities = 46/223 (20%), Positives = 86/223 (38%), Gaps = 28/223 (12%)

Query: 327 ISIRDSSIHELLEGL--ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDF--CRMQ 382
           + I    +   L  +     +++ + ++++       VP  F   +K L+ +D     M 
Sbjct: 291 LHIPQFYLFYDLSTVYSLLEKVKRITVENSKVF---LVPCSFSQHLKSLEFLDLSENLMV 347

Query: 383 FFSLPPS--IDHLLNLQTLCLDQCILGDVAIIG----KLKNLEILSFSGSGIVKLPEELG 436
              L  S       +LQTL L Q  L  +   G     LKNL  L  S +    +P+   
Sbjct: 348 EEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQ 407

Query: 437 QLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC-FVEWEDEGPNSETIN------ 489
              K+R L+LS+   ++V+   +      LE L +SN     +    P  + +       
Sbjct: 408 WPEKMRFLNLSST-GIRVVKTCI---PQTLEVLDVSNNNLDSFSLFLPRLQELYISRNKL 463

Query: 490 SRLDELMHLPRLTTLEVHVKND-NILPEGFFA--RKLERFKIS 529
             L +    P L  +++  +N    +P+G F     L++  + 
Sbjct: 464 KTLPDASLFPVLLVMKIS-RNQLKSVPDGIFDRLTSLQKIWLH 505

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 60.9 bits (148), Expect = 2e-09
 Identities = 86/508 (16%), Positives = 184/508 (36%), Gaps = 97/508 (19%)

Query: 562  LRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQN 618
            L+ L LK +   TI       + ++E+L L    L  + +  F       S LK+L++  
Sbjct: 52   LQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFG----PLSSLKYLNLMG 107

Query: 619  NPDFMCIVDSMERVPLHDAF---PLLESLNLYNLMKLERICQD---------RLSVQSFN 666
            N          + + +   F     L++L + N+     I +           L +    
Sbjct: 108  N--------PYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEI-KAL 158

Query: 667  ELKTIRVEHCGQLSNIFLLS------------AAKCLPRLETIAVINCRNIQEIFAVGGG 714
             L+  + +    + +I  L+             A  L  +  + + +       F     
Sbjct: 159  SLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRD--TNLARFQFSPL 216

Query: 715  DVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSS 774
             V      ++    R   L +     SF   ++  R    L E  +++ +     L   +
Sbjct: 217  PVDEVSSPMKKLAFRGSVLTDE----SFNELLKLLRYILELSEVEFDDCTLNG--LGDFN 270

Query: 775  PLLNEKVV-FPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSAS 833
            P  ++ V     +E + +R++++ + +     + ++   + + R+ +    K+  V   S
Sbjct: 271  PSESDVVSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLV-PCS 328

Query: 834  MLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRL-------------- 879
              +  + L+ L+++    + E   K        P+     L TL L              
Sbjct: 329  FSQHLKSLEFLDLSEN-LMVEEYLKNSACKGAWPS-----LQTLVLSQNHLRSMQKTGEI 382

Query: 880  -IGLPKLKSLY------PGMHTS-EWPA-LKVLNVLACDQVTVFASELFHFCKISEENKL 930
             + L  L SL         M  S +WP  ++ LN L+   + V  + +    ++     L
Sbjct: 383  LLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLN-LSSTGIRVVKTCIPQTLEV-----L 436

Query: 931  DTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFP 990
            D  +  +L       P L+EL ++   ++ +   +     F  L V++++ + + +   P
Sbjct: 437  DV-SNNNLDSFSLFLPRLQELYISRNKLKTLPDASL----FPVLLVMKISRNQLKS--VP 489

Query: 991  LGLLERFNNLEKLRLDG----CSCKEIL 1014
             G+ +R  +L+K+ L      CSC  I 
Sbjct: 490  DGIFDRLTSLQKIWLHTNPWDCSCPRID 517

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 46.6 bits (111), Expect = 4e-05
 Identities = 55/399 (13%), Positives = 116/399 (29%), Gaps = 66/399 (16%)

Query: 782  VFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHL 841
            +  ++++LDL    +  I H            NL  LIL    ++  +       S   L
Sbjct: 24   LTAAMKSLDLSFNKITYIGHG-----DLRACANLQVLILKSS-RINTI-EGDAFYSLGSL 76

Query: 842  QHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLP--KLKSLYPGMHTSEWPA 899
            +HL+++    L  +            +  F  L++L+ + L     ++L           
Sbjct: 77   EHLDLSDN-HLSSL-----------SSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTN 124

Query: 900  LKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIR 959
            L+ L +                             R     L     +L EL +    +R
Sbjct: 125  LQTLRI-------------------GNVETFSEIRRIDFAGL----TSLNELEIKALSLR 161

Query: 960  MIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGH 1019
                 +        +  L L     +         +  +++  L L   +      +   
Sbjct: 162  NYQSQSLKS--IRDIHHLTLHLSESAF--LLEIFADILSSVRYLELRDTNLARFQFSPLP 217

Query: 1020 LDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVS 1079
            +D+    + ++ + R   L D +           +     +      + L    PS S  
Sbjct: 218  VDEVSSPMKKL-AFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDV 276

Query: 1080 FWNLTSLEVSSCKKLI---NLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAK-EE 1135
               L  +E  + ++L      +    +     L K+         + +  E +++     
Sbjct: 277  VSELGKVETVTIRRLHIPQFYLFYDLSTVYSLLEKV---------KRITVENSKVFLVPC 327

Query: 1136 IVFSKLKRLSLVDLD----SLASFCSGNYIFKFPSLEYL 1170
                 LK L  +DL           +      +PSL+ L
Sbjct: 328  SFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTL 366

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 45.1 bits (107), Expect = 1e-04
 Identities = 25/123 (20%), Positives = 50/123 (40%), Gaps = 13/123 (10%)

Query: 329 IRDSSIHELLEGLECPQ-LEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           I  ++ H + +  + P+ + FL + S G   V+  +P       + L+V+D       S 
Sbjct: 394 ISRNTFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIP-------QTLEVLDVSNNNLDSF 446

Query: 387 PPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLD 445
                 L  LQ L + +  L  +        L ++  S + +  +P+    +LT L+ + 
Sbjct: 447 SL---FLPRLQELYISRNKLKTLPDASLFPVLLVMKISRNQLKSVPDGIFDRLTSLQKIW 503

Query: 446 LSN 448
           L  
Sbjct: 504 LHT 506

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 79.0 bits (195), Expect = 1e-15
 Identities = 51/295 (17%), Positives = 100/295 (33%), Gaps = 45/295 (15%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLD 402
             ++ L + +N  +    +          L+ +        ++       L +L+ L L 
Sbjct: 52  EAVKSLDLSNNRIT---YISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLS 108

Query: 403 QCILGDV--AIIGKLKNLEILSFSGSGIVKLPEE--LGQLTKLRHLDLSNCFKLKVIAPN 458
              L ++  +    L +L  L+  G+    L E      LTKL+ L + N      I   
Sbjct: 109 YNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRK 168

Query: 459 VISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF 518
             + L  LEEL +            + ++   +   L  +  ++ L +H+K   +L E F
Sbjct: 169 DFAGLTFLEELEIDAS---------DLQSYEPKS--LKSIQNVSHLILHMKQHILLLEIF 217

Query: 519 FAR-------KLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS 571
                     +L    +     + L  G              F      T R +K+   S
Sbjct: 218 VDVTSSVECLELRDTDLDTFHFSELSTGE------TNSLIKKF------TFRNVKITDES 265

Query: 572 TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMC 624
                K L  I  +  L     +L+ + + +F    +  + L+ + +  NP + C
Sbjct: 266 LFQVMKLLNQISGLLELEFSRNQLKSVPDGIF----DRLTSLQKIWLHTNP-WDC 315

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 44.0 bits (104), Expect = 2e-04
 Identities = 46/248 (18%), Positives = 78/248 (31%), Gaps = 43/248 (17%)

Query: 784  PSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQH 843
             SLE LDL    +       LS++ F    +LT L L      K +   S+      LQ 
Sbjct: 100  GSLEHLDLSYNYLS-----NLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKLQI 153

Query: 844  LEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGL--PKLKSLYPGMHTSEWPALK 901
            L +   +   +I               F GLT L  + +    L+S  P        +++
Sbjct: 154  LRVGNMDTFTKI-----------QRKDFAGLTFLEELEIDASDLQSYEPKS----LKSIQ 198

Query: 902  VLNVLACD--QVTVFASELFHF-----CKISEENKLDTPARQSL----FFLEKVFPNLEE 950
             ++ L     Q  +             C    +  LDT     L                
Sbjct: 199  NVSHLILHMKQHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRN 258

Query: 951  LGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG--- 1007
            + +  + +  +            L  L  + + +     P G+ +R  +L+K+ L     
Sbjct: 259  VKITDESLFQVMKLLNQ---ISGLLELEFSRNQLK--SVPDGIFDRLTSLQKIWLHTNPW 313

Query: 1008 -CSCKEIL 1014
             CSC  I 
Sbjct: 314  DCSCPRID 321

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 44.0 bits (104), Expect = 2e-04
 Identities = 37/230 (16%), Positives = 75/230 (32%), Gaps = 52/230 (22%)

Query: 782  VFPSLEALDLR--QINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFE 839
            +  ++++LDL   +I         +S +      NL  L+L     +  +       S  
Sbjct: 50   LTEAVKSLDLSNNRIT-------YISNSDLQRCVNLQALVLTSN-GINTI-EEDSFSSLG 100

Query: 840  HLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLP--KLKSLYPGMHTSEW 897
             L+HL+++    L  +            +  F  L++L  + L     K+L      S  
Sbjct: 101  SLEHLDLSYN-YLSNL-----------SSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHL 148

Query: 898  PALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKD 957
              L++L V   D  T    + F                            LEEL ++  D
Sbjct: 149  TKLQILRVGNMDTFTKIQRKDFAGL-----------------------TFLEELEIDASD 185

Query: 958  IRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG 1007
            ++     +  + +  ++  L L              ++  +++E L L  
Sbjct: 186  LQSYEPKSL-KSI-QNVSHLILHMKQHIL--LLEIFVDVTSSVECLELRD 231

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 79.3 bits (196), Expect = 1e-15
 Identities = 51/371 (13%), Positives = 123/371 (33%), Gaps = 50/371 (13%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           I ++   ++   E +     + +   ++       +P       +++++++   +Q   +
Sbjct: 28  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMR---KLPAALLDSFRQVELLNLNDLQIEEI 84

Query: 387 PPSI-DHLLNLQTLCLDQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLR 442
                 +   +Q L +    +  +   +   +  L +L    + +  LP  +     KL 
Sbjct: 85  DTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLT 144

Query: 443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG--PNSETINSRLDELMHLPR 500
            L +SN   L+ I  +   +   L+ L +S+  +   D    P+    N   + L  L  
Sbjct: 145 TLSMSNN-NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAI 203

Query: 501 LTTLEV-HVKNDNI--LPEGFFARKLERFKIS----VGEAAFLPFGA------TSNDACF 547
              +E     +++I  +       +L   K+        A  L +        + N    
Sbjct: 204 PIAVEELDASHNSINVVRGPVNV-ELTILKLQHNNLTDTAWLLNYPGLVEVDLSYN---- 258

Query: 548 RLSW-PLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELD 604
            L           + L  L +  N     +   + I  ++ L L    L  ++    +  
Sbjct: 259 ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQF- 317

Query: 605 TEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQS 664
                +L++L++ +N        S+  + L      L++L L +    +      L    
Sbjct: 318 ----DRLENLYLDHN--------SIVTLKL-STHHTLKNLTLSHN-DWDCNSLRAL---- 359

Query: 665 FNELKTIRVEH 675
           F  +    V+ 
Sbjct: 360 FRNVARPAVDD 370

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 58.9 bits (143), Expect = 5e-09
 Identities = 46/283 (16%), Positives = 91/283 (32%), Gaps = 69/283 (24%)

Query: 415 LKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
           L N +I++F  S + KLP   L    ++  L+L++  +++ I     +    +++LYM  
Sbjct: 44  LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGF 102

Query: 474 CFVEWEDEG-----PNSETIN------SRLDE--LMHLPRLTTLEVHVKNDNILPEGFFA 520
             + +         P    +       S L      + P+LTTL +   N   + +  F 
Sbjct: 103 NAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQ 162

Query: 521 --RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKK 578
               L+  ++S      +      +                  L    +  N  +     
Sbjct: 163 ATTSLQNLQLSSNRLTHVDLSLIPS------------------LFHANVSYNLLS----T 200

Query: 579 LEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF 638
           L     VE L         N +  +      +L  L +Q+N        ++        +
Sbjct: 201 LAIPIAVEELDAS-----HNSINVVRGPVNVELTILKLQHN--------NLTDTAWLLNY 247

Query: 639 PLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSN 681
           P L  ++L                 S+NEL+ I      ++  
Sbjct: 248 PGLVEVDL-----------------SYNELEKIMYHPFVKMQR 273

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 80.1 bits (198), Expect = 2e-15
 Identities = 39/204 (19%), Positives = 69/204 (33%), Gaps = 20/204 (9%)

Query: 333 SIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDH 392
                   ++ P LEFL +  NG S       +   G   LK +D       ++  +   
Sbjct: 336 KGGNAFSEVDLPSLEFLDLSRNGLS-FKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLG 394

Query: 393 LLNLQTLCLDQC---ILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSN 448
           L  L+ L         + + ++   L+NL  L  S +            L+ L  L ++ 
Sbjct: 395 LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAG 454

Query: 449 CFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHV 508
               +   P++ + L  L  L +S C +E                    L  L  L +  
Sbjct: 455 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTA-----------FNSLSSLQVLNMA- 502

Query: 509 KND-NILPEGFFAR--KLERFKIS 529
            N    +P+G F R   L++  + 
Sbjct: 503 SNQLKSVPDGIFDRLTSLQKIWLH 526

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 79.8 bits (197), Expect = 3e-15
 Identities = 106/666 (15%), Positives = 182/666 (27%), Gaps = 162/666 (24%)

Query: 362  VPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCILGDV--AIIGKLKNL 418
            +P+      K L   D        L   S      LQ L L +C +  +       L +L
Sbjct: 22   IPDNLPFSTKNL---DLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHL 78

Query: 419  EILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVE 477
              L  +G+ I  L       L+ L+ L       L  +    I  L  L+EL +++    
Sbjct: 79   STLILTGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH---- 133

Query: 478  WEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKI-SVGEAAFL 536
                  N        +   +L  L  L+                 L   KI S+      
Sbjct: 134  ------NLIQSFKLPEYFSNLTNLEHLD-----------------LSSNKIQSIYCTDLR 170

Query: 537  PFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLDKLQG 595
                                       +L L LN    I     + I  +  L L     
Sbjct: 171  VLHQMPL-----------------LNLSLDLSLNPMNFIQPGAFKEI-RLHKLTLRNNF- 211

Query: 596  IKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERI 655
                   +       L  L V          +         A   L +L +         
Sbjct: 212  ---DSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLD 268

Query: 656  CQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGD 715
                  +  FN L  +       ++ I  +         + + ++NC+  Q         
Sbjct: 269  YYLDDIIDLFNCLTNVSSFSLVSVT-IERVKDFSYNFGWQHLELVNCKFGQ--------- 318

Query: 716  VVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSP 775
                   ++   L+ L   +     +F      + +   L     N +S       +   
Sbjct: 319  ----FPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLS---RNGLSFKGCCSQSDFG 371

Query: 776  LLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASML 835
                     SL+ LDL    V  +  +      F   + L  L       LK +   S+ 
Sbjct: 372  T-------TSLKYLDLSFNGVITMSSN------FLGLEQLEHLDFQHS-NLKQMSEFSVF 417

Query: 836  RSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTS 895
             S  +L +L+I+     +              N +F GL++L ++ +             
Sbjct: 418  LSLRNLIYLDISHT-HTRVA-----------FNGIFNGLSSLEVLKM------------- 452

Query: 896  EWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVF---PNLEELG 952
                                            N           FL  +F    NL  L 
Sbjct: 453  ------------------------------AGNSF------QENFLPDIFTELRNLTFLD 476

Query: 953  LNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG----C 1008
            L+   +  +    F      SL+VL +A + + +   P G+ +R  +L+K+ L      C
Sbjct: 477  LSQCQLEQLSPTAFNSL--SSLQVLNMASNQLKS--VPDGIFDRLTSLQKIWLHTNPWDC 532

Query: 1009 SCKEIL 1014
            SC  I 
Sbjct: 533  SCPRID 538

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 72.1 bits (177), Expect = 7e-13
 Identities = 53/397 (13%), Positives = 119/397 (29%), Gaps = 62/397 (15%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVD--FCRMQFFSLPPSIDHLLNLQTLC 400
              L+ L       +   ++       +K LK ++     +Q F LP    +L NL+ L 
Sbjct: 99  LSSLQKLVAVETNLA---SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLD 155

Query: 401 LDQCILGDVA--IIGKLKNLEI----LSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKV 454
           L    +  +    +  L  + +    L  S + +  +     +  +L  L L N F    
Sbjct: 156 LSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLN 215

Query: 455 IAPNVISSLIRLEELY----------------------MSNCFVEWEDEGPNSETINSRL 492
           +    I  L  LE                         + N  +E          ++  +
Sbjct: 216 VMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDII 275

Query: 493 DELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSW- 551
           D    L  +++  +       + +  +    +  ++   +    P     +      +  
Sbjct: 276 DLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSN 335

Query: 552 PLFMINDSETLRTLKL------KLNSTTISSKKLEGIKNVEYLCLD--KLQGIKNVLFEL 603
                     L +L+        L+     S+   G  +++YL L    +  + +    L
Sbjct: 336 KGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGL 395

Query: 604 DTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF---PLLESLNLYNLMKLERICQDRL 660
                 QL+HL  Q++        +++++     F     L  L++ +            
Sbjct: 396 -----EQLEHLDFQHS--------NLKQMSEFSVFLSLRNLIYLDISH-THTRVAFNGIF 441

Query: 661 SVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETI 697
                + L+ +++         FL      L  L  +
Sbjct: 442 --NGLSSLEVLKMAGN-SFQENFLPDIFTELRNLTFL 475

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 59.7 bits (145), Expect = 4e-09
 Identities = 46/310 (14%), Positives = 102/310 (32%), Gaps = 67/310 (21%)

Query: 319 DALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDF 378
           + L    + S+   +I  + +       + L + +         P      +K LK + F
Sbjct: 279 NCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFG---QFP---TLKLKSLKRLTF 332

Query: 379 CRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAI----IGKLKNLEILSFSGSGIVKLPEE 434
              +  +    +  L +L+ L L +  L              +L+ L  S +G++ +   
Sbjct: 333 TSNKGGNAFSEV-DLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN 391

Query: 435 LGQLTKLRHLDLSNCFKLKVIAP-NVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLD 493
              L +L HLD  +   LK ++  +V  SL  L  L +S+          ++    + + 
Sbjct: 392 FLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT---------HTRVAFNGI- 440

Query: 494 ELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPL 553
               L  L  L++     N   E                                 ++  
Sbjct: 441 -FNGLSSLEVLKMA---GNSFQE---------------------------------NFLP 463

Query: 554 FMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQ 610
            +  +   L  L L       +S      + +++ L +   +L+ + + +F    +  + 
Sbjct: 464 DIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIF----DRLTS 519

Query: 611 LKHLHVQNNP 620
           L+ + +  NP
Sbjct: 520 LQKIWLHTNP 529

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 52.4 bits (126), Expect = 8e-07
 Identities = 72/465 (15%), Positives = 146/465 (31%), Gaps = 87/465 (18%)

Query: 562  LRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQN 618
            L TL L  N   +++     G+ +++ L      L  ++N            LK L+V +
Sbjct: 78   LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIG----HLKTLKELNVAH 133

Query: 619  NPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQ 678
            N         ++   L + F  L +L   +L              S N++++I       
Sbjct: 134  N--------LIQSFKLPEYFSNLTNLEHLDL--------------SSNKIQSIYCTDLRV 171

Query: 679  LSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPV 738
            L           +P L     ++   +  I             +     L  L L N   
Sbjct: 172  LHQ---------MPLLNLSLDLSLNPMNFI-----QPGAFKEIR-----LHKLTLRNNFD 212

Query: 739  LRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLL--NEKVVFPSLEALDLRQINV 796
              +  +          +Q     E+ RL      +   L   +K     L  L + +  +
Sbjct: 213  SLNVMKTC--------IQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRL 264

Query: 797  EKIWHDQLS-AAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEI 855
              + +       +F C  N++   L     ++ V   S    ++HL+ +     +     
Sbjct: 265  AYLDYYLDDIIDLFNCLTNVSSFSLVSV-TIERVKDFSYNFGWQHLELVNCKFGQ----- 318

Query: 856  ISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFA 915
                       P      L  L      K  + +  +     P+L+ L+ L+ + ++   
Sbjct: 319  ----------FPTLKLKSLKRLTFTSN-KGGNAFSEVDL---PSLEFLD-LSRNGLSFKG 363

Query: 916  SELFHFCKISEENKLDTPARQSLFFLEKVF---PNLEELGLNGKDIRMIWHGNFPQHLFG 972
                     +    LD  +   +  +   F     LE L     +++ +   +    L  
Sbjct: 364  CCSQSDFGTTSLKYLDL-SFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSL-R 421

Query: 973  SLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSND 1017
            +L  L ++  H        G+    ++LE L++ G S +E    D
Sbjct: 422  NLIYLDISHTHTR--VAFNGIFNGLSSLEVLKMAGNSFQENFLPD 464

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 49.3 bits (118), Expect = 7e-06
 Identities = 66/402 (16%), Positives = 119/402 (29%), Gaps = 65/402 (16%)

Query: 783  FPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQ 842
            FP L+ LDL +  ++ I         +    +L+ LIL     ++ + +         LQ
Sbjct: 51   FPELQVLDLSRCEIQTI-----EDGAYQSLSHLSTLILTGN-PIQSL-ALGAFSGLSSLQ 103

Query: 843  HLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLP--KLKSLYPGMHTSEWPAL 900
             L       L  +            NF    L TL+ + +    ++S     + S    L
Sbjct: 104  KLVAVET-NLASL-----------ENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNL 151

Query: 901  KVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRM 960
            + L++                      NK+ +     L  L ++      L L+   +  
Sbjct: 152  EHLDL--------------------SSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNF 191

Query: 961  IWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDGHL 1020
            I  G F + +   L  L L ++  S              L  L +      E  +     
Sbjct: 192  IQPGAF-KEI--RLHKLTLRNNFDSLNVMK----TCIQGLAGLEVHRLVLGEFRNEGNLE 244

Query: 1021 DKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSF 1080
                  L  + +L +     L  L      +  +F  + +V      S+ I         
Sbjct: 245  KFDKSALEGLCNLTIEEF-RLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYN 303

Query: 1081 WNLTSLEVSSCKKLINLVASSAAKSLVALV----KMQVFGCRAMTQVVKS---EGNQLAK 1133
            +    LE+ +CK       +   KSL  L     K            ++      N L+ 
Sbjct: 304  FGWQHLELVNCK--FGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSF 361

Query: 1134 EEI---VFSKLKRLSLVDLDS--LASFCSGNYIFKFPSLEYL 1170
            +            L  +DL    + +  S         LE+L
Sbjct: 362  KGCCSQSDFGTTSLKYLDLSFNGVITMSSN--FLGLEQLEHL 401

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 79.7 bits (197), Expect = 3e-15
 Identities = 35/192 (18%), Positives = 64/192 (33%), Gaps = 16/192 (8%)

Query: 317 DEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVV 376
               L+    ++   +        ++ P LEFL +  NG S +    +  F G   LK +
Sbjct: 320 PTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDF-GTTSLKYL 378

Query: 377 DFCRMQFFSLPPSIDHLLNLQTLCLDQC---ILGDVAIIGKLKNLEILSFSGSGIVKL-P 432
           D       ++  +   L  L+ L         + + ++   L+NL  L  S +       
Sbjct: 379 DLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFN 438

Query: 433 EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRL 492
                L+ L  L ++     +   P++ + L  L  L +S C +E               
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP----------- 487

Query: 493 DELMHLPRLTTL 504
                L  L  L
Sbjct: 488 TAFNSLSSLQVL 499

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 70.1 bits (172), Expect = 2e-12
 Identities = 52/307 (16%), Positives = 99/307 (32%), Gaps = 52/307 (16%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
            S+   +I  + +       + L + +         P      +K+L    F   +    
Sbjct: 287 FSLVSVTIERVKDFSYNFGWQHLELVNCKFG---QFPTLKLKSLKRL---TFTSNKG-GN 339

Query: 387 PPSIDHLLNLQTLCLDQCILGDVAII----GKLKNLEILSFSGSGIVKLPEELGQLTKLR 442
             S   L +L+ L L +  L              +L+ L  S +G++ +      L +L 
Sbjct: 340 AFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLE 399

Query: 443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLT 502
           HLD  +    ++   +V  SL  L  L +S+        G               L  L 
Sbjct: 400 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-----------IFNGLSSLE 448

Query: 503 TLEVHVKN---DNILPEGF-FARKLERFKISVGEAAFLPFGATSNDACFRLSW-PLFMIN 557
            L++   N   +N LP+ F   R L    +S                  +L        N
Sbjct: 449 VLKMA-GNSFQENFLPDIFTELRNLTFLDLS------------QC----QLEQLSPTAFN 491

Query: 558 DSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQG-IKNVLFELDTEGFSQLKH 613
              +L+ L +  N+  ++ +   + + +++ L      +    K  L        S L  
Sbjct: 492 SLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHF----PSSLAF 547

Query: 614 LHVQNNP 620
           L++  N 
Sbjct: 548 LNLTQND 554

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 69.3 bits (170), Expect = 5e-12
 Identities = 60/361 (16%), Positives = 118/361 (32%), Gaps = 53/361 (14%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLD 402
              + L +  N      ++    F    +L+V+D  R +  ++   +   L +L TL L 
Sbjct: 28  FSTKNLDLSFNPLR---HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILT 84

Query: 403 QCILGDVA--IIGKLKNLEILSFSGSGIVKL-PEELGQLTKLRHLDLSNCFKLKVIAPNV 459
              +  +A      L +L+ L    + +  L    +G L  L+ L++++        P  
Sbjct: 85  GNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY 144

Query: 460 ISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNI--LPEG 517
            S+L  LE L +S+  +             + L  L  +P L  L + +  + +  +  G
Sbjct: 145 FSNLTNLEHLDLSSNKI--------QSIYCTDLRVLHQMP-LLNLSLDLSLNPMNFIQPG 195

Query: 518 FFAR-KLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS----- 571
            F   +L +  +               +    L+     I     L   +L L       
Sbjct: 196 AFKEIRLHKLTLR--------------NNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEG 241

Query: 572 --TTISSKKLEGIKN--VEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVD 627
                    LEG+ N  +E   L  L    + + +L     + +    + +         
Sbjct: 242 NLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLF-NCLTNVSSFSLVSV-------- 292

Query: 628 SMERVPLHDAFPLLESLNLYN--LMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLL 685
           ++ERV         + L L N    +   +    L   +F   K         L ++  L
Sbjct: 293 TIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFL 352

Query: 686 S 686
            
Sbjct: 353 D 353

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 59.3 bits (144), Expect = 5e-09
 Identities = 57/380 (15%), Positives = 113/380 (29%), Gaps = 65/380 (17%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVD--FCRMQFFSLPPSIDHLLNLQTLC 400
              L+ L       +   ++       +K LK ++     +Q F LP    +L NL+ L 
Sbjct: 99  LSSLQKLVAVETNLA---SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLD 155

Query: 401 LDQCILGDV--AIIGKLKNLEI----LSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKV 454
           L    +  +    +  L  + +    L  S + +  +     +  +L  L L N F    
Sbjct: 156 LSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLN 215

Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEGP----------------------NSETINSRL 492
           +    I  L  LE   +       E                              ++  +
Sbjct: 216 VMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDII 275

Query: 493 DELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLS-- 550
           D    L  +++  +       + +  +    +  ++   +    P     +      +  
Sbjct: 276 DLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSN 335

Query: 551 --WPLFMINDSETLRTLKL---KLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDT 605
                F   D  +L  L L    L+     S+   G  +++YL    L     +    + 
Sbjct: 336 KGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL---DLSFNGVITMSSNF 392

Query: 606 EGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSF 665
            G  QL+HL  Q++              L         L+L NL+ L       +S    
Sbjct: 393 LGLEQLEHLDFQHSN-------------LKQMSEFSVFLSLRNLIYL------DIS---H 430

Query: 666 NELKTIRVEHCGQLSNIFLL 685
              +         LS++ +L
Sbjct: 431 THTRVAFNGIFNGLSSLEVL 450

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 74.6 bits (184), Expect = 3e-15
 Identities = 36/211 (17%), Positives = 70/211 (33%), Gaps = 29/211 (13%)

Query: 298 ACRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNG-S 356
              +Q  L    + V   PD    +      +  SS   + E  +   L ++ + +   +
Sbjct: 1   GAAEQTGLKASQDNV-NIPD-STFKAYLNGLLGQSSTANITEA-QMNSLTYITLANINVT 57

Query: 357 SVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAI--IGK 414
            +              +K +    +   +  P I  L NL+ L +    +    I  +  
Sbjct: 58  DLT------GIEYAHNIKDLTINNIHATNYNP-ISGLSNLERLRIMGKDVTSDKIPNLSG 110

Query: 415 LKNLEILSFSGSGI-VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
           L +L +L  S S     +  ++  L K+  +DLS    +  I P  + +L  L+ L +  
Sbjct: 111 LTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMP--LKTLPELKSLNIQF 168

Query: 474 CFVEWEDEGPNSETINSRLDELMHLPRLTTL 504
             V                  +   P+L  L
Sbjct: 169 DGV-------------HDYRGIEDFPKLNQL 186

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 69.2 bits (170), Expect = 3e-13
 Identities = 28/141 (19%), Positives = 50/141 (35%), Gaps = 15/141 (10%)

Query: 367 FTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGS 426
              M  L  +    +    L   I++  N++ L ++     +   I  L NLE L   G 
Sbjct: 40  EAQMNSLTYITLANINVTDLTG-IEYAHNIKDLTINNIHATNYNPISGLSNLERLRIMGK 98

Query: 427 GIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNS 485
            +       L  LT L  LD+S+           I++L ++  + +S             
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHS-AHDDSILTKINTLPKVNSIDLSYN----------- 146

Query: 486 ETINSRLDELMHLPRLTTLEV 506
               + +  L  LP L +L +
Sbjct: 147 -GAITDIMPLKTLPELKSLNI 166

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 41.9 bits (99), Expect = 5e-04
 Identities = 16/100 (16%), Positives = 29/100 (29%), Gaps = 6/100 (6%)

Query: 329 IRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP 388
           +    I   L GL    L  L +  +      +        + K+  +D       +   
Sbjct: 100 VTSDKI-PNLSGL--TSLTLLDISHSAHD---DSILTKINTLPKVNSIDLSYNGAITDIM 153

Query: 389 SIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
            +  L  L++L +    + D   I     L  L      I
Sbjct: 154 PLKTLPELKSLNIQFDGVHDYRGIEDFPKLNQLYAFSQTI 193

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 78.8 bits (194), Expect = 6e-15
 Identities = 50/380 (13%), Positives = 123/380 (32%), Gaps = 66/380 (17%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           I ++   ++   E +     + +   ++       +P       +++++++   +Q   +
Sbjct: 34  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMR---KLPAALLDSFRQVELLNLNDLQIEEI 90

Query: 387 PPSI-DHLLNLQTLCLDQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLR 442
                 +   +Q L +    +  +   +   +  L +L    + +  LP  +     KL 
Sbjct: 91  DTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLT 150

Query: 443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG--PNSETINSRLDELMHLPR 500
            L +SN   L+ I  +   +   L+ L +S+  +   D    P+    N   + L  L  
Sbjct: 151 TLSMSNN-NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAI 209

Query: 501 LTTLEV-HVKNDNI--LPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMIN 557
              +E     +++I  +       +L   K+              N     L+     + 
Sbjct: 210 PIAVEELDASHNSINVVRGPVN-VELTILKLQ------------HN----NLT-DTAWLL 251

Query: 558 DSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFEL----------- 603
           +   L  + L  N    I       ++ +E L +   +L  +      +           
Sbjct: 252 NYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHN 311

Query: 604 -------DTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERIC 656
                  +   F +L++L++ +N        S+  + L      L++L L +    +   
Sbjct: 312 HLLHVERNQPQFDRLENLYLDHN--------SIVTLKL-STHHTLKNLTLSHN-DWDCNS 361

Query: 657 QDRLSVQSFNELKTIRVEHC 676
              L    F  +    V+  
Sbjct: 362 LRAL----FRNVARPAVDDA 377

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 61.1 bits (148), Expect = 1e-09
 Identities = 48/310 (15%), Positives = 96/310 (30%), Gaps = 70/310 (22%)

Query: 388 PSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDL 446
                  ++      Q +      I  L N +I++F  S + KLP   L    ++  L+L
Sbjct: 24  QYDCVFYDVHIDMQTQDVYFGFEDIT-LNNQKIVTFKNSTMRKLPAALLDSFRQVELLNL 82

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG-----PNSETIN------SRLDE- 494
           ++  +++ I     +    +++LYM    + +         P    +       S L   
Sbjct: 83  NDL-QIEEIDTYAFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRG 141

Query: 495 -LMHLPRLTTLEVHVKNDNILPEGFFA--RKLERFKISVGEAAFLPFGATSNDACFRLSW 551
              + P+LTTL +   N   + +  F     L+  ++S      +      +        
Sbjct: 142 IFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPS-------- 193

Query: 552 PLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQL 611
                     L    +  N  +     L     VE L         N +  +      +L
Sbjct: 194 ----------LFHANVSYNLLS----TLAIPIAVEELDAS-----HNSINVVRGPVNVEL 234

Query: 612 KHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTI 671
             L +Q+N        ++        +P L  ++L                 S+NEL+ I
Sbjct: 235 TILKLQHN--------NLTDTAWLLNYPGLVEVDL-----------------SYNELEKI 269

Query: 672 RVEHCGQLSN 681
                 ++  
Sbjct: 270 MYHPFVKMQR 279

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 75.4 bits (186), Expect = 1e-14
 Identities = 34/181 (18%), Positives = 60/181 (33%), Gaps = 16/181 (8%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
            QL  L + SNG S       +   G   LK +D       ++  +   L  L+ L    
Sbjct: 52  TQLTKLSLSSNGLSF-KGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH 110

Query: 404 C---ILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNV 459
                + + ++   L+NL  L  S +            L+ L  L ++     +   P++
Sbjct: 111 SNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDI 170

Query: 460 ISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFF 519
            + L  L  L +S C +         E ++        L  L  L +   N   L    +
Sbjct: 171 FTELRNLTFLDLSQCQL---------EQLSPTA--FNSLSSLQVLNMSHNNFFSLDTFPY 219

Query: 520 A 520
            
Sbjct: 220 K 220

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 68.9 bits (169), Expect = 2e-12
 Identities = 49/279 (17%), Positives = 90/279 (32%), Gaps = 54/279 (19%)

Query: 362 VPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQCILGDVAIIG----KLK 416
           VP    +   +L   +    +  SLP  + D L  L  L L    L              
Sbjct: 22  VPTGIPSSATRL---ELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTT 78

Query: 417 NLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFV 476
           +L+ L  S +G++ +      L +L HLD  +    ++   +V  SL  L  L +S+   
Sbjct: 79  SLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT-- 136

Query: 477 EWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNI--LPEGFFA--RKLERFKIS--- 529
                  ++    + +     L  L  L++   N          F   R L    +S   
Sbjct: 137 -------HTRVAFNGI--FNGLSSLEVLKMA-GNSFQENFLPDIFTELRNLTFLDLSQCQ 186

Query: 530 ---VGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNV 585
              +   AF                     N   +L+ L +  N+  ++ +   + + ++
Sbjct: 187 LEQLSPTAF---------------------NSLSSLQVLNMSHNNFFSLDTFPYKCLNSL 225

Query: 586 EYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMC 624
           + L       I     +      S L  L++  N  F C
Sbjct: 226 QVLDYSLNH-IMTSKKQELQHFPSSLAFLNLTQND-FAC 262

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 64.3 bits (157), Expect = 5e-11
 Identities = 28/147 (19%), Positives = 53/147 (36%), Gaps = 10/147 (6%)

Query: 332 SSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI- 390
            ++     GL   QLE L    +  +++       F  ++ L  +D            I 
Sbjct: 91  ITMSSNFLGL--EQLEHLDFQHS--NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF 146

Query: 391 DHLLNLQTLCLDQC-ILGDVA--IIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDL 446
           + L +L+ L +       +    I  +L+NL  L  S   + +L       L+ L+ L++
Sbjct: 147 NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 206

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSN 473
           S+      +       L  L+ L  S 
Sbjct: 207 SHN-NFFSLDTFPYKCLNSLQVLDYSL 232

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 76.2 bits (188), Expect = 3e-14
 Identities = 33/171 (19%), Positives = 63/171 (36%), Gaps = 24/171 (14%)

Query: 338 LEGLE-CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNL 396
           +  L     L+ L ++ N    ++         +  L  +D    Q  +L P +  L  L
Sbjct: 214 ITPLGILTNLDELSLNGN----QLKDIG-TLASLTNLTDLDLANNQISNLAP-LSGLTKL 267

Query: 397 QTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
             L L    + +++ +  L  L  L  + + +  +   +  L  L +L L     +  I+
Sbjct: 268 TELKLGANQISNISPLAGLTALTNLELNENQLEDIS-PISNLKNLTYLTLYFN-NISDIS 325

Query: 457 PNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
           P  +SSL +L+ L+  N  V             S +  L +L  +  L   
Sbjct: 326 P--VSSLTKLQRLFFYNNKV-------------SDVSSLANLTNINWLSAG 361

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 74.6 bits (184), Expect = 6e-14
 Identities = 54/278 (19%), Positives = 98/278 (35%), Gaps = 50/278 (17%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
            +     +     +  ++      T + ++  +   R+   S+   +++L NL  +    
Sbjct: 24  AEKMKTVLGKTNVTDTVS-----QTDLDQVTTLQADRLGIKSIDG-VEYLNNLTQINFSN 77

Query: 404 CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL 463
             L D+  +  L  L  +  + + I  +   L  LT L  L L N  ++  I P  + +L
Sbjct: 78  NQLTDITPLKNLTKLVDILMNNNQIADIT-PLANLTNLTGLTLFNN-QITDIDP--LKNL 133

Query: 464 IRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKL 523
             L  L +S+  +             S +  L  L  L  L    +  ++ P       L
Sbjct: 134 TNLNRLELSSNTI-------------SDISALSGLTSLQQLSFGNQVTDLKPLANL-TTL 179

Query: 524 ERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIK 583
           ER  IS            SN            ++D   L  L   L S   ++ ++  I 
Sbjct: 180 ERLDIS------------SNK-----------VSDISVLAKLT-NLESLIATNNQISDIT 215

Query: 584 NVEYL-CLDKLQGIKNVLFELDT-EGFSQLKHLHVQNN 619
            +  L  LD+L    N L ++ T    + L  L + NN
Sbjct: 216 PLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANN 253

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 66.1 bits (162), Expect = 3e-11
 Identities = 27/133 (20%), Positives = 58/133 (43%), Gaps = 12/133 (9%)

Query: 343 CPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
             +L  L + +N  S++          G+  L  ++    Q   + P I +L NL  L L
Sbjct: 264 LTKLTELKLGANQISNIS------PLAGLTALTNLELNENQLEDISP-ISNLKNLTYLTL 316

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
               + D++ +  L  L+ L F  + +  +   L  LT +  L   +  ++  + P  ++
Sbjct: 317 YFNNISDISPVSSLTKLQRLFFYNNKVSDVSS-LANLTNINWLSAGHN-QISDLTP--LA 372

Query: 462 SLIRLEELYMSNC 474
           +L R+ +L +++ 
Sbjct: 373 NLTRITQLGLNDQ 385

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 65.4 bits (160), Expect = 7e-11
 Identities = 38/166 (22%), Positives = 70/166 (42%), Gaps = 24/166 (14%)

Query: 342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
               L+ L   +  + ++          +  L+ +D    +   +   +  L NL++L  
Sbjct: 154 GLTSLQQLSFGNQVTDLKP------LANLTTLERLDISSNKVSDISV-LAKLTNLESLIA 206

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
               + D+  +G L NL+ LS +G+ +  +   L  LT L  LDL+N  ++  +AP  +S
Sbjct: 207 TNNQISDITPLGILTNLDELSLNGNQLKDIG-TLASLTNLTDLDLANN-QISNLAP--LS 262

Query: 462 SLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
            L +L EL +    +             S +  L  L  LT LE++
Sbjct: 263 GLTKLTELKLGANQI-------------SNISPLAGLTALTNLELN 295

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 52.7 bits (127), Expect = 6e-07
 Identities = 21/147 (14%), Positives = 49/147 (33%), Gaps = 8/147 (5%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           + + ++ + ++        L +L +  N  S          + + KL+ + F   +   +
Sbjct: 292 LELNENQLEDISPISNLKNLTYLTLYFNNISDISP-----VSSLTKLQRLFFYNNKVSDV 346

Query: 387 PPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDL 446
              + +L N+  L      + D+  +  L  +  L  +       P        + +   
Sbjct: 347 SS-LANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVK 405

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSN 473
           +    L  IAP  IS      E  ++ 
Sbjct: 406 NVTGAL--IAPATISDGGSYTEPDITW 430

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 76.6 bits (189), Expect = 3e-14
 Identities = 20/178 (11%), Positives = 54/178 (30%), Gaps = 15/178 (8%)

Query: 333 SIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDH 392
           +  +     +   L    ++S+     I    K      K   +         +  ++  
Sbjct: 148 TFVDYDPREDFSDLIKDCINSDPQQKSIK---KSSRITLKDTQIGQLSNNITFVSKAVMR 204

Query: 393 LLNLQTLCLDQCILGDVAI--IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCF 450
           L  L+   +         I    + +N E      +       +   L  L  +++ NC 
Sbjct: 205 LTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKT----EDLKWDNLKDLTDVEVYNCP 260

Query: 451 KLKVIAPNVISSLIRLEELYMS-NCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
            L  + P  + +L  ++ + ++ N  +     G   +     L +     ++  + + 
Sbjct: 261 NLTKL-PTFLKALPEMQLINVACNRGI----SGEQLKDDWQALADAPVGEKIQIIYIG 313

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 70.1 bits (172), Expect = 3e-12
 Identities = 18/144 (12%), Positives = 49/144 (34%), Gaps = 16/144 (11%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLP---------PSIDHL 393
              L  + + +  +  ++  P      + ++++++    +  S                 
Sbjct: 248 LKDLTDVEVYNCPNLTKL--PTFLK-ALPEMQLINVACNRGISGEQLKDDWQALADAPVG 304

Query: 394 LNLQTLCLDQCILGDVAI---IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCF 450
             +Q + +    L    +   + K+K L +L    + +       G   KL  L+L+   
Sbjct: 305 EKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLASLNLAYN- 363

Query: 451 KLKVIAPNVISSLIRLEELYMSNC 474
           ++  I  N      ++E L  ++ 
Sbjct: 364 QITEIPANFCGFTEQVENLSFAHN 387

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 68.9 bits (169), Expect = 7e-12
 Identities = 22/175 (12%), Positives = 51/175 (29%), Gaps = 23/175 (13%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLL-NLQTLCL 401
             +L  L    N    ++  P   F    KL  ++    Q   +P +       ++ L  
Sbjct: 329 MKKLGMLECLYNQLEGKL--PA--FGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSF 384

Query: 402 DQCILGDVAI---IGKLKNLEILSFSG--------SGIVKLPEELGQLTKLRHLDLSNCF 450
               L  +        +  +  + FS              L     +   +  ++LSN  
Sbjct: 385 AHNKLKYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN- 443

Query: 451 KLKVIAPNVISSLIRLEELYMS-NCFVEWEDEGPNSETINSRLDELMHLPRLTTL 504
           ++      + S+   L  + +  N             ++    +   +   LT++
Sbjct: 444 QISKFPKELFSTGSPLSSINLMGNML-----TEIPKNSLKDENENFKNTYLLTSI 493

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 66.6 bits (163), Expect = 4e-11
 Identities = 24/155 (15%), Positives = 56/155 (36%), Gaps = 16/155 (10%)

Query: 332 SSIHELLEGLECPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI 390
                L +     +++ +Y+  N   +  +   E     MKKL +++    Q     P+ 
Sbjct: 293 DDWQALADAPVGEKIQIIYIGYNNLKTFPV---ETSLQKMKKLGMLECLYNQLEGKLPAF 349

Query: 391 DHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPE--ELGQLTKLRHLDL 446
              + L +L L    + ++     G  + +E LSF+ + +  +P   +   ++ +  +D 
Sbjct: 350 GSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIFDAKSVSVMSAIDF 409

Query: 447 SN-------CFKLKVIAPNVISSLIRLEELYMSNC 474
           S              +        I +  + +SN 
Sbjct: 410 SYNEIGSVDGKNFDPL-DPTPFKGINVSSINLSNN 443

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 65.4 bits (160), Expect = 8e-11
 Identities = 29/218 (13%), Positives = 58/218 (26%), Gaps = 32/218 (14%)

Query: 332 SSIHELLEGLECPQLEFLYMDSN-----GSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
             I  + +      +  +    N            +    F     +  ++    Q    
Sbjct: 390 KYIPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPF-KGINVSSINLSNNQISKF 448

Query: 387 PPSI-DHLLNLQTLCLDQCILGDV---------AIIGKLKNLEILSFSGSGIVKLPEEL- 435
           P  +      L ++ L   +L ++                 L  +    + + KL ++  
Sbjct: 449 PKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFR 508

Query: 436 -GQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPN--SETINSRL 492
              L  L  +DLS         P    +   L+   + N      D   N          
Sbjct: 509 ATTLPYLVGIDLSYN-SFSKF-PTQPLNSSTLKGFGIRNQR----DAQGNRTLREWP--- 559

Query: 493 DELMHLPRLTTLEVHVKND-NILPEGFFARKLERFKIS 529
           + +   P LT L++   ND   + E      +    I 
Sbjct: 560 EGITLCPSLTQLQIG-SNDIRKVNEKIT-PNISVLDIK 595

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 60.8 bits (148), Expect = 2e-09
 Identities = 21/165 (12%), Positives = 51/165 (30%), Gaps = 24/165 (14%)

Query: 328 SIRDSSIHELLEGLE-CPQLEFLYMDSNGSSVEIN-VPEKFFTGMKKLKVVD-------- 377
           S+   +   L         +  + + +N    +I+  P++ F+    L  ++        
Sbjct: 416 SVDGKNFDPLDPTPFKGINVSSINLSNN----QISKFPKELFSTGSPLSSINLMGNMLTE 471

Query: 378 FCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV---AIIGKLKNLEILSFSGSGIVKLPEE 434
             +        +  +   L ++ L    L  +        L  L  +  S +   K P +
Sbjct: 472 IPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQ 531

Query: 435 LGQLTKLRHLDLSNCFKL------KVIAPNVISSLIRLEELYMSN 473
               + L+   + N          +   P  I+    L +L + +
Sbjct: 532 PLNSSTLKGFGIRNQRDAQGNRTLREW-PEGITLCPSLTQLQIGS 575

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 57.4 bits (139), Expect = 2e-08
 Identities = 19/139 (13%), Positives = 41/139 (29%), Gaps = 15/139 (10%)

Query: 343 CPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
              L  + +  N  + +     +   T +  L  +D     F   P    +   L+   +
Sbjct: 487 TYLLTSIDLRFNKLTKLS---DDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGI 543

Query: 402 DQC-------ILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLK 453
                      L +    I    +L  L    + I K+ E++     +  LD+ +     
Sbjct: 544 RNQRDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKI--TPNISVLDIKDN-PNI 600

Query: 454 VIAPNVISSLIRLEELYMS 472
            I  + +   I      + 
Sbjct: 601 SIDLSYVCPYIEAGMYMLF 619

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 52.0 bits (125), Expect = 1e-06
 Identities = 25/165 (15%), Positives = 45/165 (27%), Gaps = 20/165 (12%)

Query: 343 CPQLEFLYMDSN-GSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSID---HLLNLQT 398
             +LE L + S+     E     K  +     +     RM +       D      +L  
Sbjct: 104 LTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIK 163

Query: 399 LCL--DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
            C+  D                  +    + I  + + + +LTKLR   + N        
Sbjct: 164 DCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSP----FV 219

Query: 457 PNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRL 501
              I      E    +             +T + + D L  L  +
Sbjct: 220 AENICEAWENENSEYAQ----------QYKTEDLKWDNLKDLTDV 254

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 44.6 bits (106), Expect = 2e-04
 Identities = 47/347 (13%), Positives = 120/347 (34%), Gaps = 66/347 (19%)

Query: 412 IGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLS-NCFKLKVIA--PNVISSLIRLE 467
           +     +  LS  G G   ++P+ +GQLT+L  L L  +  K+      P  IS+ +  E
Sbjct: 77  LNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDE 136

Query: 468 ELYMSNCFVEWEDEGPNSETINSRLDELM--------HLPRLTTL-----EVHVKNDNI- 513
           +        +      +     S L +           + + + +     ++   ++NI 
Sbjct: 137 QKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNIT 196

Query: 514 -LPEGFFA-RKLERFKIS----VGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKL 567
            + +      KL +F +     V E     +   +++   +        ++ + L  +++
Sbjct: 197 FVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEV 256

Query: 568 -KLNSTTISSKKLEGIKNVEYLCLD--KLQGIKNVLFEL----DTEGFSQLKHLHVQNNP 620
               + T     L+ +  ++ + +   +    + +  +     D     +++ +++  N 
Sbjct: 257 YNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN- 315

Query: 621 DFMCIVDSMERVPLHDAF---PLLESLNLY------------NLMKLERICQDRLSVQSF 665
                  +++  P+  +      L  L               + +KL       L++ ++
Sbjct: 316 -------NLKTFPVETSLQKMKKLGMLECLYNQLEGKLPAFGSEIKLA-----SLNL-AY 362

Query: 666 NELKTIRVEHCGQLSNIFLLSAAKCLPRLETI----AVINCRNIQEI 708
           N++  I    CG    +  LS A    +L+ I       +   +  I
Sbjct: 363 NQITEIPANFCGFTEQVENLSFAHN--KLKYIPNIFDAKSVSVMSAI 407

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 74.9 bits (185), Expect = 3e-14
 Identities = 43/260 (16%), Positives = 86/260 (33%), Gaps = 57/260 (21%)

Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
            + +       +     +    + L ++  L +    +  +  I  L NLE L+ +G+ I
Sbjct: 20  DLAEGIRAVLQKASVTDVVT-QEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQI 78

Query: 429 VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETI 488
             +   L  L KL +L +    K+  I+   + +L  L ELY++   +            
Sbjct: 79  TDIS-PLSNLVKLTNLYIGTN-KITDISA--LQNLTNLRELYLNEDNI------------ 122

Query: 489 NSRLDELMHLPRLTTLEVHVKNDNI-LPEGFFA-RKLERFKISVGEAAFLPFGATSNDAC 546
            S +  L +L ++ +L +   N N+           L    ++             +   
Sbjct: 123 -SDISPLANLTKMYSLNLG-ANHNLSDLSPLSNMTGLNYLTVT------------ESK-- 166

Query: 547 FRLSWPLFMINDSETLRTLK----LKLNSTTISS-KKLEGIKNVEYLCLD--KLQGIKNV 599
                    + D   +  L     L LN   I     L  + ++ Y      ++  I  V
Sbjct: 167 ---------VKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITPV 217

Query: 600 LFELDTEGFSQLKHLHVQNN 619
                    ++L  L + NN
Sbjct: 218 ------ANMTRLNSLKIGNN 231

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 74.9 bits (185), Expect = 3e-14
 Identities = 32/193 (16%), Positives = 75/193 (38%), Gaps = 24/193 (12%)

Query: 316 PDEDALRKCYAISIRDSSIHELLEGLE-CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLK 374
             ++ L     + +    +  + +G+E    LE+L ++ N    +I       + + KL 
Sbjct: 38  VTQEELESITKLVVAGEKVASI-QGIEYLTNLEYLNLNGN----QITDIS-PLSNLVKLT 91

Query: 375 VVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE 434
            +     +   +   + +L NL+ L L++  + D++ +  L  +  L+   +  +     
Sbjct: 92  NLYIGTNKITDISA-LQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSP 150

Query: 435 LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDE 494
           L  +T L +L ++   K+K + P  I++L  L  L ++   +               +  
Sbjct: 151 LSNMTGLNYLTVTES-KVKDVTP--IANLTDLYSLSLNYNQI-------------EDISP 194

Query: 495 LMHLPRLTTLEVH 507
           L  L  L     +
Sbjct: 195 LASLTSLHYFTAY 207

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 71.4 bits (176), Expect = 4e-13
 Identities = 30/162 (18%), Positives = 64/162 (39%), Gaps = 21/162 (12%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD 402
              L  L ++ N               +  L        Q   + P + ++  L +L + 
Sbjct: 176 LTDLYSLSLNYNQIEDISP-----LASLTSLHYFTAYVNQITDITP-VANMTRLNSLKIG 229

Query: 403 QCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISS 462
              + D++ +  L  L  L    + I  +   +  LTKL+ L++ +  ++  I+   +++
Sbjct: 230 NNKITDLSPLANLSQLTWLEIGTNQISDINA-VKDLTKLKMLNVGSN-QISDISV--LNN 285

Query: 463 LIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTL 504
           L +L  L+++N  +  ED           ++ +  L  LTTL
Sbjct: 286 LSQLNSLFLNNNQLGNED-----------MEVIGGLTNLTTL 316

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 67.2 bits (165), Expect = 8e-12
 Identities = 26/132 (19%), Positives = 54/132 (40%), Gaps = 10/132 (7%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD 402
             +L  L + +N    +I         + +L  ++    Q   +   +  L  L+ L + 
Sbjct: 220 MTRLNSLKIGNN----KITDLS-PLANLSQLTWLEIGTNQISDINA-VKDLTKLKMLNVG 273

Query: 403 QCILGDVAIIGKLKNLEILSFSGSGIVKL-PEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
              + D++++  L  L  L  + + +     E +G LT L  L LS    +  I P  ++
Sbjct: 274 SNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-HITDIRP--LA 330

Query: 462 SLIRLEELYMSN 473
           SL +++    +N
Sbjct: 331 SLSKMDSADFAN 342

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 51.8 bits (125), Expect = 8e-07
 Identities = 29/226 (12%), Positives = 66/226 (29%), Gaps = 42/226 (18%)

Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVI 455
             TL      +  +     L          + +  +     +L  +  L ++   K+  I
Sbjct: 2   AATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVV-TQEELESITKLVVAGE-KVASI 59

Query: 456 APNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILP 515
               I  L  LE L ++   +             + +  L +L +LT L +       + 
Sbjct: 60  QG--IEYLTNLEYLNLNGNQI-------------TDISPLSNLVKLTNLYIGTNKITDIS 104

Query: 516 EGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTIS 575
                  L    ++             +     +S  +  + +   + +L L  N     
Sbjct: 105 ALQNLTNLRELYLN------------ED----NIS-DISPLANLTKMYSLNLGANHNLSD 147

Query: 576 SKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNN 619
              L  +  + YL +   K++ +  +         + L  L +  N
Sbjct: 148 LSPLSNMTGLNYLTVTESKVKDVTPI------ANLTDLYSLSLNYN 187

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 75.8 bits (187), Expect = 4e-14
 Identities = 56/357 (15%), Positives = 115/357 (32%), Gaps = 60/357 (16%)

Query: 338 LEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKK--LKVVDFCRMQFFSLPP-SIDHLL 394
           L+      L     +        ++    F G+ +  ++ ++  +  FF++   +     
Sbjct: 222 LKNSTIQSLWLGTFEDMDDE---DISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFS 278

Query: 395 NLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKL 452
            LQ L L    L ++ + +  L  L+ L  S +    L +        L HL +    K 
Sbjct: 279 GLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKR 338

Query: 453 KVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDN 512
             +    + +L  L EL +S+  +         ET +    +L +L  L +L +      
Sbjct: 339 LELGTGCLENLENLRELDLSHDDI---------ETSDCCNLQLRNLSHLQSLNLSYNEPL 389

Query: 513 ILPEGFFA--RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLN 570
            L    F    +LE   ++                  ++        +   L+ L L  +
Sbjct: 390 SLKTEAFKECPQLELLDLA------------FTR--LKVKDAQSPFQNLHLLKVLNLSHS 435

Query: 571 S-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVD 627
                S +  +G+  +++L L                 +   +L+ L +           
Sbjct: 436 LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNS-LQTLGRLEILVLSFC-------- 486

Query: 628 SMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFL 684
            +  +    AF  L+ +N  +L              S N L +  +E    L  I+L
Sbjct: 487 DLSSID-QHAFTSLKMMNHVDL--------------SHNRLTSSSIEALSHLKGIYL 528

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 68.5 bits (168), Expect = 8e-12
 Identities = 56/371 (15%), Positives = 119/371 (32%), Gaps = 61/371 (16%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCL 401
             +L+ L + +N       + E   +G K LK + F +    S+    + +   L++L L
Sbjct: 80  QHRLDTLVLTANPLI---FMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYL 136

Query: 402 DQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRH--LDLSNCFKLKVIA 456
               +  +        + L++L F  + I  L +E +  L +  +  L+L+    +  I 
Sbjct: 137 GSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLSLNLNGND-IAGIE 195

Query: 457 PNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPE 516
           P         + L              N   I   L     +  L        +D  +  
Sbjct: 196 PG-AFDSAVFQSLNFGGT--------QNLLVIFKGLKNS-TIQSLWLGTFEDMDDEDISP 245

Query: 517 GFFA----RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNST 572
             F       +E   +       +                         L+ L L     
Sbjct: 246 AVFEGLCEMSVESINLQKHYFFNISSNTFHC---------------FSGLQELDLTATHL 290

Query: 573 TISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSME 630
           +     L G+  ++ L L   K + +  +        F  L HL ++ N   + +     
Sbjct: 291 SELPSGLVGLSTLKKLVLSANKFENLCQISA----SNFPSLTHLSIKGNTKRLELGT--- 343

Query: 631 RVPLHDAF---PLLESLNL-YNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLS 686
                        L  L+L ++   +E      L +++ + L+++ + +  +  ++    
Sbjct: 344 -----GCLENLENLRELDLSHD--DIETSDCCNLQLRNLSHLQSLNLSYN-EPLSLK-TE 394

Query: 687 AAKCLPRLETI 697
           A K  P+LE +
Sbjct: 395 AFKECPQLELL 405

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 65.0 bits (159), Expect = 1e-10
 Identities = 90/637 (14%), Positives = 182/637 (28%), Gaps = 146/637 (22%)

Query: 415  LKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
              + E L FS + +  +      +L  L  LDL+ C ++  I  +   S  RL+ L ++ 
Sbjct: 32   PNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTFQSQHRLDTLVLTA 90

Query: 474  CFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFA--RKLERFKISVG 531
              + +  E             L     L  L       + +        + LE   +   
Sbjct: 91   NPLIFMAETA-----------LSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLG-- 137

Query: 532  EAAFLPFGATSNDACFRLSW-PLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLC 589
                      SN     +S   L     +E L+ L  + N+   +S + +  ++    L 
Sbjct: 138  ----------SN----HISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLS 183

Query: 590  LDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNL 649
            L+ L G      E      +  + L+     + + I   ++   +      L      ++
Sbjct: 184  LN-LNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQS----LWLGTFEDM 238

Query: 650  MKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAA--KCLPRLETI---------- 697
               E I            +++I ++        F +S+    C   L+ +          
Sbjct: 239  -DDEDISPAVFEGLCEMSVESINLQKH----YFFNISSNTFHCFSGLQELDLTATHLSEL 293

Query: 698  --AVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGL 755
               ++    ++++         +   K E   L  +   N P L      ++ N +   L
Sbjct: 294  PSGLVGLSTLKKLV--------LSANKFE--NLCQISASNFPSLTHL--SIKGNTKRLEL 341

Query: 756  QETC-------------YNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHD 802
               C             +++I            L         L++L+L       +  +
Sbjct: 342  GTGCLENLENLRELDLSHDDIETSDCCNLQLRNL-------SHLQSLNLSYNEPLSLKTE 394

Query: 803  QLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTD 862
                  F     L  L L    +LK   + S  ++   L+ L ++    L          
Sbjct: 395  -----AFKECPQLELLDLAFT-RLKVKDAQSPFQNLHLLKVLNLSHS-LLDIS------- 440

Query: 863  DQVTPNFVFPGLTTLRLI-----GLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASE 917
                   +F GL  L+ +       PK               L++L +            
Sbjct: 441  ----SEQLFDGLPALQHLNLQGNHFPKGNIQKTNS-LQTLGRLEILVL------------ 483

Query: 918  LFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVL 977
               FC +S  ++         F        +  + L+   +               LK +
Sbjct: 484  --SFCDLSSIDQ-------HAF---TSLKMMNHVDLSHNRLTSS-----SIEALSHLKGI 526

Query: 978  RLADDHVSAAGFPLGLLERFNNLEKLRLDG----CSC 1010
             L       +     LL   +    + L      C+C
Sbjct: 527  YLNLASNHISIILPSLLPILSQQRTINLRQNPLDCTC 563

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 74.0 bits (182), Expect = 1e-13
 Identities = 49/298 (16%), Positives = 98/298 (32%), Gaps = 70/298 (23%)

Query: 336 ELLEGLECPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHL 393
            +  GL    L  L +  N    +I  + +  F  +  LK ++        +       L
Sbjct: 98  GVFTGL--SNLTKLDISEN----KIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGL 151

Query: 394 LNLQTLCLDQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCF 450
            +L+ L L++C L  +    +  L  L +L      I  + +    +L +L+ L++S+  
Sbjct: 152 NSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWP 211

Query: 451 KLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKN 510
            L  + PN +  L  L  L +++C         N   +      + HL  L  L +   N
Sbjct: 212 YLDTMTPNCLYGL-NLTSLSITHC---------NLTAVPYLA--VRHLVYLRFLNLS-YN 258

Query: 511 D-NILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKL 569
             + +       +L R                                    L+ ++L  
Sbjct: 259 PISTIEGSML-HELLR------------------------------------LQEIQLVG 281

Query: 570 NS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMC 624
                +      G+  +  L +   +L  ++  +F         L+ L + +NP   C
Sbjct: 282 GQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVF----HSVGNLETLILDSNP-LAC 334

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 65.9 bits (161), Expect = 4e-11
 Identities = 65/328 (19%), Positives = 104/328 (31%), Gaps = 78/328 (23%)

Query: 332 SSIHE-LLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI 390
           S++       L    L  L + SN       +P   FTG+  L  +D    +   L   +
Sbjct: 69  SAVEPGAFNNL--FNLRTLGLRSNRLK---LIPLGVFTGLSNLTKLDISENKIVILLDYM 123

Query: 391 -DHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNC 449
              L NL++L +             L  +   +FSG            L  L  L L  C
Sbjct: 124 FQDLYNLKSLEVGDN---------DLVYISHRAFSG------------LNSLEQLTLEKC 162

Query: 450 FKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNS-ETINSRLDELMHLPRLTTLEVHV 508
             L  I    +S L  L  L + +           +   I         L RL  LE+  
Sbjct: 163 -NLTSIPTEALSHLHGLIVLRLRH----------LNINAIRD--YSFKRLYRLKVLEISH 209

Query: 509 KN--DNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLK 566
               D + P   +   L    I+      +P+ A               +     LR L 
Sbjct: 210 WPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLA---------------VRHLVYLRFLN 254

Query: 567 LKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFM 623
           L  N  +TI    L  +  ++ + L   +L  ++   F     G + L+ L+V  N    
Sbjct: 255 LSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAF----RGLNYLRVLNVSGN---- 306

Query: 624 CIVDSMERVPLHDAF---PLLESLNLYN 648
                +  +     F     LE+L L +
Sbjct: 307 ----QLTTLE-ESVFHSVGNLETLILDS 329

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 60.1 bits (146), Expect = 2e-09
 Identities = 52/289 (17%), Positives = 95/289 (32%), Gaps = 59/289 (20%)

Query: 374 KVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKL 431
           + V   R +F ++P  I      + L L +  +  +         +LE L  + + +  +
Sbjct: 14  RAVLCHRKRFVAVPEGIP--TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAV 71

Query: 432 PEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINS 490
                  L  LR L L +  +LK+I   V + L  L +L +S   +           +  
Sbjct: 72  EPGAFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISENKI---------VILLD 121

Query: 491 RLDELMHLPRLTTLEVHVKNDN---ILPEGFFA--RKLERFKISVGEAAFLPFGATSNDA 545
            +     L  L +LEV    DN    +    F+    LE+  +       +P  A S+  
Sbjct: 122 YM--FQDLYNLKSLEVG---DNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSH-- 174

Query: 546 CFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLDKLQGIKNVLFELD 604
              L            L  L+L+  +   I     + +  ++ L +         L  + 
Sbjct: 175 ---LHG----------LIVLRLRHLNINAIRDYSFKRLYRLKVLEISHW----PYLDTMT 217

Query: 605 TEGFS--QLKHLHVQNNPDFMCIVDSMERVPLHDAF---PLLESLNLYN 648
                   L  L + +         ++  VP + A      L  LNL  
Sbjct: 218 PNCLYGLNLTSLSITHC--------NLTAVP-YLAVRHLVYLRFLNLSY 257

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 74.8 bits (184), Expect = 1e-13
 Identities = 100/566 (17%), Positives = 169/566 (29%), Gaps = 110/566 (19%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLD 402
            QL+ L + S  + + I   ++ F  +  L+++D    + + L P     L +L  L L 
Sbjct: 48  EQLQLLELGSQYTPLTI--DKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLY 105

Query: 403 QCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISS 462
            C L D  +                          L  L  LDLS      +        
Sbjct: 106 FCGLSDAVLK-------------------DGYFRNLKALTRLDLSKNQIRSLYLHPSFGK 146

Query: 463 LIRLEELYMS-NCFVEWEDE------GPNSETIN--------------SRLDELMHLPRL 501
           L  L+ +  S N      +       G      +               +         L
Sbjct: 147 LNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVL 206

Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFR-LSWPLFMINDSE 560
             L+V      +   G F+  + + +      A    GA       +      F      
Sbjct: 207 EILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARS 266

Query: 561 TLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQ 617
           ++R L L      +++S+  E +K+++ L L   K+  I +  F     G   L+ L++ 
Sbjct: 267 SVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAF----YGLDNLQVLNLS 322

Query: 618 NNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCG 677
            N                     L S N Y L K+       + +   N +  I+ +   
Sbjct: 323 YNL-----------------LGELYSSNFYGLPKVA-----YIDL-QKNHIAIIQDQTFK 359

Query: 678 QLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTL--CLGN 735
            L  +  L        L TI      +I +IF  G   V +    +    +      L N
Sbjct: 360 FLEKLQTLDLRDN--ALTTIH--FIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLEN 415

Query: 736 LPVLRSFCREVEKNRQAQGLQETC--YNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQ 793
           L +L    R          LQ      N  S        S          PSLE L L +
Sbjct: 416 LDILYFLLR-------VPHLQILILNQNRFSSCSGDQTPSEN--------PSLEQLFLGE 460

Query: 794 INVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQ 853
             ++  W  +L   +F    +L  L L     L  +    +      L+ L +    RL 
Sbjct: 461 NMLQLAWETELCWDVFEGLSHLQVLYLNHN-YLNSL-PPGVFSHLTALRGLSLNSN-RLT 517

Query: 854 EIISKGGTDDQVTPNFVFPGLTTLRL 879
            +          + N +   L  L +
Sbjct: 518 VL----------SHNDLPANLEILDI 533

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 61.7 bits (150), Expect = 1e-09
 Identities = 92/655 (14%), Positives = 193/655 (29%), Gaps = 151/655 (23%)

Query: 415  LKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
            L   E L  S + I  +       L +L+ L+L + +    I      +L  L  L + +
Sbjct: 23   LNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGS 82

Query: 474  CFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKN---DNILPEGFFA--RKLERFKI 528
              +           ++        L  L  L ++      D +L +G+F   + L R  +
Sbjct: 83   SKI---------YFLHPDA--FQGLFHLFELRLY-FCGLSDAVLKDGYFRNLKALTRLDL 130

Query: 529  SVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEY 587
            S  +   L               P F   +S  L+++    N    +   +LE ++    
Sbjct: 131  SKNQIRSLYLH------------PSFGKLNS--LKSIDFSSNQIFLVCEHELEPLQGKTL 176

Query: 588  LCLD----KLQGIKNVLFELDTEGFS--QLKHLHVQNNPDFMCIVDSMERVPLHDAFPLL 641
                     L    +V +      F    L+ L V  N                +    +
Sbjct: 177  SFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGN--------GWTVDITGNFSNAI 228

Query: 642  ESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQL--SNIFLLSAAKC-LPRLETIA 698
                 ++L+    I         F+ +K         L  S++  L  +   +  L +  
Sbjct: 229  SKSQAFSLILAHHIMGAGF---GFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRV 285

Query: 699  VINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQGLQET 758
                ++++ +         + + KI   ++       L  L+                  
Sbjct: 286  FETLKDLKVLN--------LAYNKIN--KIADEAFYGLDNLQVL--------------NL 321

Query: 759  CYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRL 818
             YN +  L                 P +  +DL+         + ++      F+ L   
Sbjct: 322  SYNLLGELYSSNFYG---------LPKVAYIDLQ--------KNHIAIIQDQTFKFL--- 361

Query: 819  ILWICPKLKYV-FSASMLRSFEHLQHLE--IACCERLQEIISKGGTDDQVTPNFVFPGLT 875
                  KL+ +    + L +   +  +        +L  +              +     
Sbjct: 362  -----EKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPK------------INLTAN 404

Query: 876  TLRLIGLPKLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPAR 935
             + L    +L++L         P L++L +                     +N+  + + 
Sbjct: 405  LIHLSEN-RLENLDILYFLLRVPHLQILIL--------------------NQNRFSSCSG 443

Query: 936  QSLFFLEKVFPNLEELGLNGKDIRMIWHGNFPQHLFG---SLKVLRLADDHVSAAGFPLG 992
                      P+LE+L L    +++ W       +F     L+VL L  +++++   P G
Sbjct: 444  DQTP---SENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNS--LPPG 498

Query: 993  LLERFNNLEKLRLDGCSCKEI-----LSNDGHLDKHGGKLAQIKSLRLVRLNDLN 1042
            +      L  L L+      +      +N   LD    +L        V L+ L+
Sbjct: 499  VFSHLTALRGLSLNSNRLTVLSHNDLPANLEILDISRNQLLAPNPDVFVSLSVLD 553

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 44.4 bits (105), Expect = 3e-04
 Identities = 39/229 (17%), Positives = 71/229 (31%), Gaps = 26/229 (11%)

Query: 946  PNLEELGLNGKDIRMIWHGNFPQHLF---GSLKVLRLADDHVSAAGFPLGLLERFNNLEK 1002
            PNL  L L    I  +         F     L  LRL    +S A    G       L +
Sbjct: 73   PNLRILDLGSSKIYFL-----HPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTR 127

Query: 1003 LRLDGCSCKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKED----SQMDSMFQYV 1058
            L L     + +     +L    GKL  +KS+     N +  + + +          F  +
Sbjct: 128  LDLSKNQIRSL-----YLHPSFGKLNSLKSIDF-SSNQIFLVCEHELEPLQGKTLSFFSL 181

Query: 1059 DDVLIHGCDSLLILLPSSSVSFWNLTSLEVSSCKKLINLVASSAAKSLVALVKMQVFGCR 1118
                ++   S+      +      L  L+VS       +  +    + ++  +       
Sbjct: 182  AANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNG--WTVDITGNFSNAISKSQAFSLILA 239

Query: 1119 AMTQVVKSEGNQLAK-EEIVFSKLKRLSLVDLDSLASFCSGNYIFKFPS 1166
                      + +   ++  F+ L R S+  LD      S  ++F   S
Sbjct: 240  HHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLD-----LSHGFVFSLNS 283

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 44.4 bits (105), Expect = 3e-04
 Identities = 31/146 (21%), Positives = 59/146 (40%), Gaps = 5/146 (3%)

Query: 343 CPQLEFLYMDSNG--SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTL 399
            P LE L++  N    + E  +    F G+  L+V+        SLPP +  HL  L+ L
Sbjct: 450 NPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGL 509

Query: 400 CLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNV 459
            L+   L  ++      NLEIL  S + ++    +      L  LD+++   +     + 
Sbjct: 510 SLNSNRLTVLSHNDLPANLEILDISRNQLLAPNPD--VFVSLSVLDITHNKFICECELST 567

Query: 460 ISSLIRLEELYMSNCFVEWEDEGPNS 485
             + +    + ++    +     P+S
Sbjct: 568 FINWLNHTNVTIAGPPADIYCVYPDS 593

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 71.2 bits (175), Expect = 3e-13
 Identities = 44/373 (11%), Positives = 94/373 (25%), Gaps = 88/373 (23%)

Query: 333 SIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SID 391
           +IHE+ +     + +   +  +                  +K +D        +    + 
Sbjct: 1   AIHEIKQNGN--RYKIEKVTDSSLK---QALASLRQSAWNVKELDLSGNPLSQISAADLA 55

Query: 392 HLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPE-----------------E 434
               L+ L L   +L +   +  L  L  L  + + + +L                    
Sbjct: 56  PFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS 115

Query: 435 LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDE 494
             +    +++ L+N  K+ ++         R++ L +            N     +  + 
Sbjct: 116 CSRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKL----------NEIDTVNFAEL 164

Query: 495 LMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLF 554
                 L  L +     N +               V                        
Sbjct: 165 AASSDTLEHLNL---QYNFI-------------YDVKGQVVFA----------------- 191

Query: 555 MINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLK 612
                  L+TL L  N       + +    V ++ L   KL  I+  L          L+
Sbjct: 192 ------KLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS-----QNLE 240

Query: 613 HLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIR 672
           H  ++ N              L D F   + +       ++++        +   L    
Sbjct: 241 HFDLRGNG--------FHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYG 292

Query: 673 VEHCGQLSNIFLL 685
              C  L   F  
Sbjct: 293 AYCCEDLPAPFAD 305

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 70.8 bits (174), Expect = 3e-13
 Identities = 37/147 (25%), Positives = 52/147 (35%), Gaps = 10/147 (6%)

Query: 332 SSIHE-LLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI 390
           + I      GL    LE L +  N     +      F G+ +L  +   R     L P +
Sbjct: 69  ARIDAAAFTGL--ALLEQLDLSDNAQLRSV--DPATFHGLGRLHTLHLDRCGLQELGPGL 124

Query: 391 -DHLLNLQTLCLDQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDL 446
              L  LQ L L    L  +       L NL  L   G+ I  +PE     L  L  L L
Sbjct: 125 FRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLL 184

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSN 473
               ++  + P+    L RL  LY+  
Sbjct: 185 HQN-RVAHVHPHAFRDLGRLMTLYLFA 210

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 53.5 bits (129), Expect = 1e-07
 Identities = 43/219 (19%), Positives = 73/219 (33%), Gaps = 43/219 (19%)

Query: 415 LKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
            +NL IL    + + ++       L  L  LDLS+  +L+ + P     L RL  L++  
Sbjct: 55  CRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDR 114

Query: 474 CFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDN---ILPEGFFA--RKLERFKI 528
           C +         + +   L     L  L  L +    DN    LP+  F     L    +
Sbjct: 115 CGL---------QELGPGL--FRGLAALQYLYL---QDNALQALPDDTFRDLGNLTHLFL 160

Query: 529 SVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEY 587
                + +P  A      FR            +L  L L  N    +       +  +  
Sbjct: 161 HGNRISSVPERA------FR---------GLHSLDRLLLHQNRVAHVHPHAFRDLGRLMT 205

Query: 588 LCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMC 624
           L L    L  +              L++L + +NP ++C
Sbjct: 206 LYLFANNLSALPTEAL----APLRALQYLRLNDNP-WVC 239

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 52.3 bits (126), Expect = 3e-07
 Identities = 46/248 (18%), Positives = 82/248 (33%), Gaps = 62/248 (25%)

Query: 417 NLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF 475
             + +   G+ I  +P         L  L L +   L  I     + L  LE+L +S+  
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAAAFTGLALLEQLDLSD-- 89

Query: 476 VEWEDEGPNSETINSRLDEL-----MHLPRLTTLEVHVKNDNI--LPEGFFA--RKLERF 526
                        N++L  +       L RL TL  H+    +  L  G F     L+  
Sbjct: 90  -------------NAQLRSVDPATFHGLGRLHTL--HLDRCGLQELGPGLFRGLAALQYL 134

Query: 527 KISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNV 585
            +       LP         FR         D   L  L L  N  +++  +   G+ ++
Sbjct: 135 YLQDNALQALPDDT------FR---------DLGNLTHLFLHGNRISSVPERAFRGLHSL 179

Query: 586 EYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF---PL 640
           + L L   ++  +    F        +L  L++  N        ++  +P  +A      
Sbjct: 180 DRLLLHQNRVAHVHPHAF----RDLGRLMTLYLFAN--------NLSALP-TEALAPLRA 226

Query: 641 LESLNLYN 648
           L+ L L +
Sbjct: 227 LQYLRLND 234

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 73.4 bits (180), Expect = 3e-13
 Identities = 45/313 (14%), Positives = 83/313 (26%), Gaps = 55/313 (17%)

Query: 382 QFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKL 441
           +   +  +I  L  LQ +               +   +  S               L  L
Sbjct: 436 RITFISKAIQRLTKLQIIYFANSPF--TYDNIAVDWEDANSDYAKQYENEELSWSNLKDL 493

Query: 442 RHLDLSNCFKLKVIAPNVISSLIRLEELYMS-NCFVEWEDEGPNSETINSRLDELMHLPR 500
             ++L NC  +  + P+ +  L  L+ L ++ N  +       +   +    D+    P+
Sbjct: 494 TDVELYNCPNMTQL-PDFLYDLPELQSLNIACNRGISAAQLKADWTRLA---DDEDTGPK 549

Query: 501 LTTLEVHVKND--NILPEGFFA--RKLERFKISVGEAAFLP-FGATSNDACFRLSWPLFM 555
           +    +   N+              KL        +   L  FG                
Sbjct: 550 IQIFYMG-YNNLEEFPASASLQKMVKLGLLDCVHNKVRHLEAFGTNVK------------ 596

Query: 556 INDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLK 612
                 L  LKL  N    I          VE L     KL+ I N+      +    + 
Sbjct: 597 ------LTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFN---AKSVYVMG 647

Query: 613 HLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIR 672
            +    N         +      +    ++     N   +       L   S+NE++   
Sbjct: 648 SVDFSYNK--------IGSEGR-NISCSMDDYKGINASTV------TL---SYNEIQKFP 689

Query: 673 VEHCGQLSNIFLL 685
            E     S I  +
Sbjct: 690 TELFATGSPISTI 702

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 69.5 bits (170), Expect = 5e-12
 Identities = 23/141 (16%), Positives = 45/141 (31%), Gaps = 11/141 (7%)

Query: 343 CPQLEFLYMDSN------GSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPS--IDHLL 394
            P+L+ L +  N          +            K+++           P S  +  ++
Sbjct: 514 LPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMV 573

Query: 395 NLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLK 453
            L  L      +  +   G    L  L    + I ++PE+      ++  L  S+  KLK
Sbjct: 574 KLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHN-KLK 632

Query: 454 VIAPNV-ISSLIRLEELYMSN 473
            I       S+  +  +  S 
Sbjct: 633 YIPNIFNAKSVYVMGSVDFSY 653

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 69.1 bits (169), Expect = 7e-12
 Identities = 47/340 (13%), Positives = 104/340 (30%), Gaps = 70/340 (20%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCL 401
             +L  L    N      ++    F    KL  +     Q   +P         ++ L  
Sbjct: 572 MVKLGLLDCVHNKVR---HLEA--FGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGF 626

Query: 402 DQCILG---DVAIIGKLKNLEILSFSGSGIVKLPEELG------QLTKLRHLDLSNCFKL 452
               L    ++     +  +  + FS + I      +       +      + LS   ++
Sbjct: 627 SHNKLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYN-EI 685

Query: 453 KVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDN 512
           +     + ++   +  + +SN  +          ++  +     +   LTT+++     N
Sbjct: 686 QKFPTELFATGSPISTIILSNNLMT----SIPENSLKPKDGNYKNTYLLTTIDLR---FN 738

Query: 513 ---ILPEGFFARKLERFK---ISVGEAAFLPFGATSNDACFRLS-WPLFMINDSETLRTL 565
               L + F A  L       +S             N      S +P   +N S  L+  
Sbjct: 739 KLTSLSDDFRATTLPYLSNMDVS------------YN----CFSSFPTQPLN-SSQLKAF 781

Query: 566 KLKLNSTTISSKKLEGI-------KNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQN 618
            ++       ++ L           ++  L +       N + ++D +   QL  L + +
Sbjct: 782 GIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS-----NDIRKVDEKLTPQLYILDIAD 836

Query: 619 NPDFMCIVDSMERVPLHDAFPLLESLNLYNLM--KLERIC 656
           NP           + +    P +E   +Y L+  K + I 
Sbjct: 837 NP--------NISIDVTSVCPYIE-AGMYVLLYDKTQDIR 867

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 64.9 bits (158), Expect = 1e-10
 Identities = 20/163 (12%), Positives = 49/163 (30%), Gaps = 19/163 (11%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           I     +I   ++  +      + +  N        P + F     +  +        S+
Sbjct: 656 IGSEGRNISCSMDDYKGINASTVTLSYNEIQ---KFPTELFATGSPISTIILSNNLMTSI 712

Query: 387 PP--------SIDHLLNLQTLCLDQCILGDV---AIIGKLKNLEILSFSGSGIVKLPEEL 435
           P         +  +   L T+ L    L  +        L  L  +  S +     P + 
Sbjct: 713 PENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQP 772

Query: 436 GQLTKLRHLDLSNCF-----KLKVIAPNVISSLIRLEELYMSN 473
              ++L+   + +       ++    P  I++   L +L + +
Sbjct: 773 LNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPSLIQLQIGS 815

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 63.7 bits (155), Expect = 3e-10
 Identities = 72/631 (11%), Positives = 182/631 (28%), Gaps = 112/631 (17%)

Query: 412  IGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELY 470
            +     +  LS +G G   ++P+ +GQLT+L+ L         V         +  +   
Sbjct: 319  LDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTH-SETVSGRLFGDEELTPDMSE 377

Query: 471  MSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISV 530
                         +   ++ +   L +  RL   ++     N  PE    +K  R  +  
Sbjct: 378  ERK----------HRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKD 427

Query: 531  GEAAFLPFGATSNDACF--------------RLSWPLFMINDSETLRTLKLKLNSTTISS 576
             +   L    T                      ++        +                
Sbjct: 428  TQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYD---NIAVDWEDANSDYAKQYENEE 484

Query: 577  KKLEGIKNVEYLCLD---KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVP 633
                 +K++  + L     +  + + L++L      +L+ L++  N          +   
Sbjct: 485  LSWSNLKDLTDVELYNCPNMTQLPDFLYDL-----PELQSLNIACNRGISAAQLKADWTR 539

Query: 634  LHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHC-GQLSNIFLLSAAKCLP 692
            L D       + ++ +               +N L+         ++  + LL       
Sbjct: 540  LADDEDTGPKIQIFYM--------------GYNNLEEFPASASLQKMVKLGLLDCVHN-- 583

Query: 693  RLETI-AVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQ 751
            ++  + A      + ++         +D+ +IE  ++          +            
Sbjct: 584  KVRHLEAFGTNVKLTDLK--------LDYNQIE--EIPEDFCAFTDQVEGL--------- 624

Query: 752  AQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMFPC 811
              G     +N++  + +  +  S           + ++D     +     +   +     
Sbjct: 625  --GFS---HNKLKYIPNIFNAKS--------VYVMGSVDFSYNKIGSEGRNISCSMDDYK 671

Query: 812  FQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEIISKGGTDDQVTPNFVF 871
              N + + L    +++  F   +  +   +  + ++    +  I      +     +  +
Sbjct: 672  GINASTVTLSYN-EIQ-KFPTELFATGSPISTIILSNN-LMTSIPE----NSLKPKDGNY 724

Query: 872  PGLTTLRLIGLP--KLKSLYPGMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENK 929
                 L  I L   KL SL      +  P L  ++ ++ +  + F ++  +  ++     
Sbjct: 725  KNTYLLTTIDLRFNKLTSLSDDFRATTLPYLSNMD-VSYNCFSSFPTQPLNSSQLKAFGI 783

Query: 930  LDTPARQSLFFLEKV------FPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDH 983
                  +    L +        P+L +L +   DIR +      + L   L +L +AD+ 
Sbjct: 784  RHQRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKV-----DEKLTPQLYILDIADNP 838

Query: 984  VSAAGFPLGLLERFNNLEKLRLDG----CSC 1010
              +             +  L  D       C
Sbjct: 839  NISIDVTSVCPYIEAGMYVLLYDKTQDIRGC 869

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 72.8 bits (178), Expect = 4e-13
 Identities = 33/171 (19%), Positives = 60/171 (35%), Gaps = 24/171 (14%)

Query: 338 LEGLE-CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNL 396
           +   +   +     +     +  +         +  +  +        S+   I +L N+
Sbjct: 14  IFPDDAFAETIKDNLKKKSVTDAVT-----QNELNSIDQIIANNSDIKSVQG-IQYLPNV 67

Query: 397 QTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
             L L+   L D+  +  LKNL  L    + I  L   L  L KL+ L L +   +  I 
Sbjct: 68  TKLFLNGNKLTDIKPLTNLKNLGWLFLDENKIKDL-SSLKDLKKLKSLSLEHN-GISDIN 125

Query: 457 PNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
              +  L +LE LY+ N  +             + +  L  L +L TL + 
Sbjct: 126 G--LVHLPQLESLYLGNNKI-------------TDITVLSRLTKLDTLSLE 161

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 66.7 bits (162), Expect = 3e-11
 Identities = 32/169 (18%), Positives = 65/169 (38%), Gaps = 21/169 (12%)

Query: 338 LEGLE-CPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLN 395
           ++ L     L +L++D N    +           +KKLK +         +   + HL  
Sbjct: 80  IKPLTNLKNLGWLFLDENKIKDLS------SLKDLKKLKSLSLEHNGISDING-LVHLPQ 132

Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVI 455
           L++L L    + D+ ++ +L  L+ LS   + I  +   L  LTKL++L LS    +  +
Sbjct: 133 LESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSKN-HISDL 190

Query: 456 APNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTL 504
               ++ L  L+ L + +     +          +    L+    +   
Sbjct: 191 RA--LAGLKNLDVLELFSQECLNKP--------INHQSNLVVPNTVKNT 229

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 72.0 bits (177), Expect = 7e-13
 Identities = 52/297 (17%), Positives = 94/297 (31%), Gaps = 67/297 (22%)

Query: 338 LEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLL--- 394
              L+ P L+ L +  N  S+           +  L  +D  R             L   
Sbjct: 322 FPTLDLPFLKSLTLTMNKGSISFK-----KVALPSLSYLDLSRNALSFSGCCSYSDLGTN 376

Query: 395 NLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEE--LGQLTKLRHLDLSNCFK 451
           +L+ L L       + A    L+ L+ L F  S + ++ E      L KL +LD+S    
Sbjct: 377 SLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYT-N 435

Query: 452 LKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKND 511
            K+    +   L  L  L M+           NS   N+  +   +   LT L++     
Sbjct: 436 TKIDFDGIFLGLTSLNTLKMAG----------NSFKDNTLSNVFANTTNLTFLDLS---K 482

Query: 512 NILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS 571
                          ++                   ++SW +F       L+ L +  N+
Sbjct: 483 C--------------QLE------------------QISWGVFDTLHR--LQLLNMSHNN 508

Query: 572 -TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCI 625
              + S     + ++  L     +++  K +L          L   ++ NN    CI
Sbjct: 509 LLFLDSSHYNQLYSLSTLDCSFNRIETSKGILQHF----PKSLAFFNLTNNS-VACI 560

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 71.6 bits (176), Expect = 8e-13
 Identities = 57/404 (14%), Positives = 114/404 (28%), Gaps = 55/404 (13%)

Query: 333 SIHELLEGL--ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVD--FCRMQFFSLPP 388
            I     G       LE L       +   ++       +  LK ++     +    LP 
Sbjct: 91  PIQSFSPGSFSGLTSLENLVAVETKLA---SLESFPIGQLITLKKLNVAHNFIHSCKLPA 147

Query: 389 SIDHLLNLQTLCLDQCILGDV------AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLR 442
              +L NL  + L    +  +       +    +    L  S + I  + ++  Q  KL 
Sbjct: 148 YFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLH 207

Query: 443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWE------DEGPNSETINSRLDELM 496
            L L   F    I    + +L  L    +     + E      +        +  +DE  
Sbjct: 208 ELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFR 267

Query: 497 ---------------HLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGAT 541
                           L  ++ + +   +   L +     K +   I   +    P    
Sbjct: 268 LTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDL 327

Query: 542 SNDACFRLSWPLFMINDSET----LRTLKLKLNS-TTISSKKLEGIKNVEYLCLDKLQGI 596
                  L+     I+  +     L  L L  N+ +         +       LD L   
Sbjct: 328 PFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLD-LSFN 386

Query: 597 KNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF---PLLESLNLYNLMKLE 653
             ++   +  G  +L+HL  Q++        +++RV    AF     L  L++      +
Sbjct: 387 GAIIMSANFMGLEELQHLDFQHS--------TLKRVTEFSAFLSLEKLLYLDISY-TNTK 437

Query: 654 RICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETI 697
                         L T+++       +  L +       L  +
Sbjct: 438 IDFDGIF--LGLTSLNTLKMAGN-SFKDNTLSNVFANTTNLTFL 478

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 70.1 bits (172), Expect = 3e-12
 Identities = 31/182 (17%), Positives = 55/182 (30%), Gaps = 16/182 (8%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           +++  +      + +  P L +L +  N  S           G   L+ +D        +
Sbjct: 333 LTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDL-GTNSLRHLDLSFNGAIIM 391

Query: 387 PPSIDHLLNLQTLCLDQ---CILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLR 442
             +   L  LQ L         + + +    L+ L  L  S +      +     LT L 
Sbjct: 392 SANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLN 451

Query: 443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLT 502
            L ++          NV ++   L  L +S C +E                    L RL 
Sbjct: 452 TLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISW-----------GVFDTLHRLQ 500

Query: 503 TL 504
            L
Sbjct: 501 LL 502

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 65.4 bits (160), Expect = 7e-11
 Identities = 27/147 (18%), Positives = 53/147 (36%), Gaps = 9/147 (6%)

Query: 332 SSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVD--FCRMQFFSLPPS 389
             + E    L   +L +L +    +       +  F G+  L  +       +  +L   
Sbjct: 412 KRVTEFSAFLSLEKLLYLDISYTNTK---IDFDGIFLGLTSLNTLKMAGNSFKDNTLSNV 468

Query: 390 IDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDL 446
             +  NL  L L +C L  +   +   L  L++L+ S + ++ L      QL  L  LD 
Sbjct: 469 FANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDC 528

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSN 473
           S   +++     +      L    ++N
Sbjct: 529 SFN-RIETSKGILQHFPKSLAFFNLTN 554

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 53.9 bits (130), Expect = 3e-07
 Identities = 91/568 (16%), Positives = 167/568 (29%), Gaps = 134/568 (23%)

Query: 562  LRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQN 618
            L  L L  N   + S     G+ ++E L     KL  +++            LK L+V +
Sbjct: 82   LSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIG----QLITLKKLNVAH 137

Query: 619  NPDFMCIVDSMERVPLHDAF---PLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEH 675
            N         +    L   F     L  ++L                 S+N ++TI V  
Sbjct: 138  N--------FIHSCKLPAYFSNLTNLVHVDL-----------------SYNYIQTITVND 172

Query: 676  CGQLSNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGN 735
               L                ++ +     I  I            Q  +  +L  L L  
Sbjct: 173  LQFLRE--------NPQVNLSLDMSLN-PIDFI----------QDQAFQGIKLHELTLRG 213

Query: 736  LPVLRSFCREVEKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQIN 795
                 +  +   +N     +      E    +  L+   P + E +   +++   L   N
Sbjct: 214  NFNSSNIMKTCLQNLAGLHVHRLILGEFKDER-NLEIFEPSIMEGLCDVTIDEFRLTYTN 272

Query: 796  VEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACCERLQEI 855
                         F C  N++ + L     +KY+            Q L I  C +L++ 
Sbjct: 273  DFSD-----DIVKFHCLANVSAMSLAGV-SIKYLEDVPKHFK---WQSLSIIRC-QLKQF 322

Query: 856  ISKGGTDDQVTPNFVFPGLTTLRL-----------IGLPKLKSLY----------PGM-H 893
                       P    P L +L L           + LP L  L                
Sbjct: 323  -----------PTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYS 371

Query: 894  TSEWPALKVLNVLACDQVTVFASELFHFCKISE----ENKLDTPARQSLFFLEKVFPNLE 949
                 +L+ L+ L+ +   + ++      ++       + L      S F        L 
Sbjct: 372  DLGTNSLRHLD-LSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAF---LSLEKLL 427

Query: 950  ELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCS 1009
             L ++  + ++ + G F   L  SL  L++A +          +     NL  L L  C 
Sbjct: 428  YLDISYTNTKIDFDGIF-LGL-TSLNTLKMAGNSFK-DNTLSNVFANTTNLTFLDLSKCQ 484

Query: 1010 CKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSL 1069
             ++I           G    +  L+L+ ++  N L            ++D    +   SL
Sbjct: 485  LEQI---------SWGVFDTLHRLQLLNMSH-NNL-----------LFLDSSHYNQLYSL 523

Query: 1070 LILLPSSSVSFWNLTSLEVSSCKKLINL 1097
              L      SF  + + +        +L
Sbjct: 524  STL----DCSFNRIETSKGILQHFPKSL 547

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 51.2 bits (123), Expect = 2e-06
 Identities = 98/659 (14%), Positives = 198/659 (30%), Gaps = 133/659 (20%)

Query: 385  SLPPSIDHLLNLQTLCLDQCILGDVAIIGKL-KNLEILSFSGSGIVKLPEE-LGQLTKLR 442
            SL P I+ + N+   C+DQ +     +   +  + + +  S + +  L        ++L+
Sbjct: 3    SLNPCIEVVPNITYQCMDQKLS---KVPDDIPSSTKNIDLSFNPLKILKSYSFSNFSELQ 59

Query: 443  HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNS-ETINSRLDELMHLPRL 501
             LDLS C +++ I       L  L  L ++           N  ++ +        L  L
Sbjct: 60   WLDLSRC-EIETIEDKAWHGLHHLSNLILTG----------NPIQSFSPGS--FSGLTSL 106

Query: 502  TTLEVHVKNDNILPEGFFA--RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDS 559
              L         L          L++  ++          A                ++ 
Sbjct: 107  ENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAY--------------FSNL 152

Query: 560  ETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFS--QLKHLHV 616
              L  + L  N   TI+   L+ ++    +    L    N +  +  + F   +L  L +
Sbjct: 153  TNLVHVDLSYNYIQTITVNDLQFLRENPQV-NLSLDMSLNPIDFIQDQAFQGIKLHELTL 211

Query: 617  QNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHC 676
            + N +   I+ +            L    L      +    +         L  + ++  
Sbjct: 212  RGNFNSSNIMKT-----CLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEF 266

Query: 677  GQLSNIFLLSAA----KCLPRLETIAVINCRNIQEIFAVGGGD--VVIDHQKIEFGQLRT 730
             +L+     S       CL  +  +++    +I+ +  V        +   + +  Q  T
Sbjct: 267  -RLTYTNDFSDDIVKFHCLANVSAMSLAGV-SIKYLEDVPKHFKWQSLSIIRCQLKQFPT 324

Query: 731  LCLGNLPVLRSFCREVEKNRQAQGLQETC----------YNEISRLKDKLDTSSPLLNEK 780
            L L  L  L      +  N+ +   ++             N +S       + S L    
Sbjct: 325  LDLPFLKSL-----TLTMNKGSISFKKVALPSLSYLDLSRNALSFSGC--CSYSDLGT-- 375

Query: 781  VVFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICP---KLKYVFSASMLRS 837
                SL  LDL       +  +      F   + L  L          LK V   S   S
Sbjct: 376  ---NSLRHLDLSFNGAIIMSAN------FMGLEELQHLDF----QHSTLKRVTEFSAFLS 422

Query: 838  FEHLQHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLP--KLKSLYPGMHTS 895
             E L +L+I+     +              + +F GLT+L  + +     K        +
Sbjct: 423  LEKLLYLDISYT-NTKID-----------FDGIFLGLTSLNTLKMAGNSFKDNTLSNVFA 470

Query: 896  EWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNG 955
                L  L++                C++ + +         +F        L+ L ++ 
Sbjct: 471  NTTNLTFLDL--------------SKCQLEQISW-------GVF---DTLHRLQLLNMSH 506

Query: 956  KDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG----CSC 1010
             ++  +   ++ Q    SL  L  + + +        L     +L    L      C C
Sbjct: 507  NNLLFLDSSHYNQ--LYSLSTLDCSFNRIE--TSKGILQHFPKSLAFFNLTNNSVACIC 561

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 70.9 bits (174), Expect = 8e-13
 Identities = 43/256 (16%), Positives = 86/256 (33%), Gaps = 40/256 (15%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLD 402
                L +  N       +    F  ++ L+++   R    ++     + L NL TL L 
Sbjct: 64  TNTRLLNLHENQIQ---IIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELF 120

Query: 403 QCILGDVA--IIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSNCFKLKVIAPNV 459
              L  +       L  L+ L    + I  +P     ++  LR LDL    +L  I+   
Sbjct: 121 DNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGA 180

Query: 460 ISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKND-NILPEGF 518
              L  L  L ++ C +               +  L  L +L  L++   N  + +  G 
Sbjct: 181 FEGLSNLRYLNLAMCNL-------------REIPNLTPLIKLDELDLS-GNHLSAIRPGS 226

Query: 519 FA--RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTIS 575
           F     L++  +   +   +   A                ++ ++L  + L  N+ T + 
Sbjct: 227 FQGLMHLQKLWMIQSQIQVIERNA---------------FDNLQSLVEINLAHNNLTLLP 271

Query: 576 SKKLEGIKNVEYLCLD 591
                 + ++E + L 
Sbjct: 272 HDLFTPLHHLERIHLH 287

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 59.8 bits (145), Expect = 3e-09
 Identities = 56/291 (19%), Positives = 105/291 (36%), Gaps = 60/291 (20%)

Query: 372 KLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIV 429
           +   V   R     +P  I    N + L L +  +  +       L++LEIL  S + I 
Sbjct: 44  QFSKVICVRKNLREVPDGIST--NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR 101

Query: 430 KLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNS-ET 487
            +       L  L  L+L +  +L  I       L +L+EL++ N          N  E+
Sbjct: 102 TIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWLRN----------NPIES 150

Query: 488 INSRLDELMHLPRLTTLEVHVKND-NILPEGFFA--RKLERFKISVGEAAFLP-FGATSN 543
           I S       +P L  L++      + + EG F     L    +++     +P       
Sbjct: 151 IPSYA--FNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIPNLTPLIK 208

Query: 544 DACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVL 600
                             L  L L  N  + I     +G+ +++ L +   ++Q I+   
Sbjct: 209 ------------------LDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNA 250

Query: 601 FELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF---PLLESLNLYN 648
           F+        L  +++ +N        ++  +P HD F     LE ++L++
Sbjct: 251 FD----NLQSLVEINLAHN--------NLTLLP-HDLFTPLHHLERIHLHH 288

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 44.4 bits (105), Expect = 2e-04
 Identities = 46/240 (19%), Positives = 77/240 (32%), Gaps = 67/240 (27%)

Query: 784  PSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQH 843
             +L  L+L    +  I         F     L  L L     ++ +  +        L+ 
Sbjct: 112  ANLNTLELFDNRLTTI-----PNGAFVYLSKLKELWLRNN-PIESI-PSYAFNRIPSLRR 164

Query: 844  LEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLR--------LIGLPKLKSLYPGMHTS 895
            L++   +RL  I               F GL+ LR        L  +P L  L       
Sbjct: 165  LDLGELKRLSYI-----------SEGAFEGLSNLRYLNLAMCNLREIPNLTPL------- 206

Query: 896  EWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNG 955
                L  L+             L         N L      S   L     +L++L +  
Sbjct: 207  --IKLDELD-------------LSG-------NHLSAIRPGSFQGL----MHLQKLWMIQ 240

Query: 956  KDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG----CSCK 1011
              I++I    F  +L  SL  + LA ++++    P  L    ++LE++ L      C+C 
Sbjct: 241  SQIQVIERNAF-DNL-QSLVEINLAHNNLTL--LPHDLFTPLHHLERIHLHHNPWNCNCD 296

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 70.2 bits (172), Expect = 2e-12
 Identities = 53/304 (17%), Positives = 100/304 (32%), Gaps = 26/304 (8%)

Query: 328 SIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLP 387
            + ++S   L        L+FL ++     + I      F G+  L ++     QF  L 
Sbjct: 44  ELNETSFSRL------QDLQFLKVEQQTPGLVI--RNNTFRGLSSLIILKLDYNQFLQLE 95

Query: 388 PSI-DHLLNLQTLCLDQCILGDVAIIG----KLKNLEILSFSGSGIVKLPEE--LGQLTK 440
               + L NL+ L L QC L    + G     L +LE+L    + I K+        + +
Sbjct: 96  TGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRR 155

Query: 441 LRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPR 500
              LDL+   K+K I    + +        +    +  +D          +         
Sbjct: 156 FHVLDLTFN-KVKSICEEDLLNFQGKHFTLLRLSSITLQD-MNEYWLGWEKCGNPFKNTS 213

Query: 501 LTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWP--LFMIND 558
           +TTL++            F   +   KI     +      +S             F   +
Sbjct: 214 ITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLE 273

Query: 559 SETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLH 615
           +  ++T  L  +    +         ++E L L   ++  I +  F     G + L  L+
Sbjct: 274 ASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAF----WGLTHLLKLN 329

Query: 616 VQNN 619
           +  N
Sbjct: 330 LSQN 333

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 57.4 bits (139), Expect = 2e-08
 Identities = 52/321 (16%), Positives = 96/321 (29%), Gaps = 61/321 (19%)

Query: 344 PQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCL 401
             LE L +  N    ++   P  FF  M++  V+D    +  S+      +        L
Sbjct: 129 TSLEMLVLRDNNIKKIQ---PASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLL 185

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVI 460
                        L ++ +   +   +         + T +  LDLS     K       
Sbjct: 186 R------------LSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSG-NGFKESMAKRF 232

Query: 461 SSLIRLEELYMSNCFVEWEDEGPNSETINSRLDEL----MHLPRLTTLEVHVKNDNILPE 516
              I   ++        +        T     D      +    + T ++       L +
Sbjct: 233 FDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLK 292

Query: 517 GFFA--RKLERFKISVGEAAFLPFGATSNDACF-RLSWPLFMINDSETLRTLKLKLNS-T 572
             F+    LE+  ++  E   +   A      F  L+           L  L L  N   
Sbjct: 293 SVFSHFTDLEQLTLAQNEINKIDDNA------FWGLT----------HLLKLNLSQNFLG 336

Query: 573 TISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSME 630
           +I S+  E +  +E L L    ++ + +  F     G   LK L +  N         ++
Sbjct: 337 SIDSRMFENLDKLEVLDLSYNHIRALGDQSF----LGLPNLKELALDTN--------QLK 384

Query: 631 RVPLHDAF---PLLESLNLYN 648
            VP    F     L+ + L+ 
Sbjct: 385 SVP-DGIFDRLTSLQKIWLHT 404

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 52.8 bits (127), Expect = 4e-07
 Identities = 29/158 (18%), Positives = 63/158 (39%), Gaps = 14/158 (8%)

Query: 329 IRDSSIHELLEGLECPQLEFLYMDSNGSSVE-------INVPEKFFTGMK--KLKVVDFC 379
            ++S      + +   +++ L + ++ +           +     F G++   +K  D  
Sbjct: 224 FKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLS 283

Query: 380 RMQFFSLPPSI-DHLLNLQTLCLDQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEEL- 435
           + + F+L  S+  H  +L+ L L Q  +  +       L +L  L+ S + +  +   + 
Sbjct: 284 KSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMF 343

Query: 436 GQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
             L KL  LDLS    ++ +       L  L+EL +  
Sbjct: 344 ENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDT 380

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 70.5 bits (173), Expect = 2e-12
 Identities = 57/363 (15%), Positives = 111/363 (30%), Gaps = 64/363 (17%)

Query: 389 SIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN 448
           S + L  L +L      + D+  I KL  L  L  + + I  L   L Q T L +L   +
Sbjct: 37  SEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD--LSQNTNLTYLACDS 94

Query: 449 CFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLD-------ELMHLPRL 501
             KL  +    ++ L +L  L      +   D   N                ++ H  +L
Sbjct: 95  N-KLTNLD---VTPLTKLTYLNCDTNKLTKLDVSQNPLLTYLNCARNTLTEIDVSHNTQL 150

Query: 502 TTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSET 561
           T L+ H+       +     +L     S  +   L                         
Sbjct: 151 TELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKL------------------ 192

Query: 562 LRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPD 621
           L  L    N+  I+   L     + +L         N L E+D    +QL +     NP 
Sbjct: 193 LNRLNCDTNN--ITKLDLNQNIQLTFLDCS-----SNKLTEIDVTPLTQLTYFDCSVNP- 244

Query: 622 FMCIVDSMERVPLHDAFPLLESLNLYN--LMKLERICQDRLSVQSFNELKTIRVEHCGQL 679
                  +  + +      L +L+     L++++     +L        + I+       
Sbjct: 245 -------LTELDVS-TLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHN 296

Query: 680 SNIFLLSAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVL 739
           + ++LL        +  + +     +  ++             +   +L  L + +   L
Sbjct: 297 TQLYLLDCQAA--GITELDLSQNPKLVYLY-------------LNNTELTELDVSHNTKL 341

Query: 740 RSF 742
           +S 
Sbjct: 342 KSL 344

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 61.2 bits (149), Expect = 1e-09
 Identities = 48/308 (15%), Positives = 87/308 (28%), Gaps = 44/308 (14%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD 402
             +L +L  D+N       + +   +    L  ++  R     +   + H   L  L   
Sbjct: 105 LTKLTYLNCDTN------KLTKLDVSQNPLLTYLNCARNTLTEID--VSHNTQLTELDCH 156

Query: 403 QCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISS 462
                    +     L  L  S + I +L   + Q   L  L+      +  +    ++ 
Sbjct: 157 LNKKITKLDVTPQTQLTTLDCSFNKITELD--VSQNKLLNRLNCDTN-NITKLD---LNQ 210

Query: 463 LIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARK 522
            I+L  L  S+              I+     +  L +LT  +  V     L     + K
Sbjct: 211 NIQLTFLDCSSN---------KLTEID-----VTPLTQLTYFDCSVNPLTELDVSTLS-K 255

Query: 523 LERFKISVGEAAFLPFGATSNDACFRLS-WPLFMINDSETLRTLK-LKLNSTTISSKKLE 580
           L        +   +     +    F+          D      L  L   +  I+   L 
Sbjct: 256 LTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELDLS 315

Query: 581 GIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPL 640
               + YL L+        L ELD    ++LK L   N          ++        P 
Sbjct: 316 QNPKLVYLYLNN-----TELTELDVSHNTKLKSLSCVNAH--------IQDFSSVGKIPA 362

Query: 641 LESLNLYN 648
           L +     
Sbjct: 363 LNNNFEAE 370

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 67.8 bits (166), Expect = 3e-12
 Identities = 36/166 (21%), Positives = 68/166 (40%), Gaps = 23/166 (13%)

Query: 342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
              ++  L +  N     +        G++ +K +D    Q   + P +  L NLQ L L
Sbjct: 83  NLTKITELELSGN----PLKNVS-AIAGLQSIKTLDLTSTQITDVTP-LAGLSNLQVLYL 136

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
           D   + +++ +  L NL+ LS   + +  L   L  L+KL  L   +  K+  I+P  ++
Sbjct: 137 DLNQITNISPLAGLTNLQYLSIGNAQVSDL-TPLANLSKLTTLKADDN-KISDISP--LA 192

Query: 462 SLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
           SL  L E+++ N  +             S +  L +   L  + + 
Sbjct: 193 SLPNLIEVHLKNNQI-------------SDVSPLANTSNLFIVTLT 225

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 63.6 bits (155), Expect = 1e-10
 Identities = 25/139 (17%), Positives = 47/139 (33%), Gaps = 18/139 (12%)

Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
            +     +   +            L  + TL      +  +  +  L NL  L    + I
Sbjct: 17  ALANAIKIAAGKSNVTDTVT-QADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQI 75

Query: 429 VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETI 488
             L   L  LTK+  L+LS    LK ++   I+ L  ++ L +++  +            
Sbjct: 76  TDL-APLKNLTKITELELSGN-PLKNVSA--IAGLQSIKTLDLTSTQI------------ 119

Query: 489 NSRLDELMHLPRLTTLEVH 507
            + +  L  L  L  L + 
Sbjct: 120 -TDVTPLAGLSNLQVLYLD 137

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 60.9 bits (148), Expect = 7e-10
 Identities = 22/118 (18%), Positives = 46/118 (38%), Gaps = 17/118 (14%)

Query: 390 IDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNC 449
              L N   +   +  + D      L  +  LS  G+G+  + E +  L  L  L+L + 
Sbjct: 15  DPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTI-EGVQYLNNLIGLELKDN 73

Query: 450 FKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
            ++  +AP  + +L ++ EL +S   +               +  +  L  + TL++ 
Sbjct: 74  -QITDLAP--LKNLTKITELELSGNPL-------------KNVSAIAGLQSIKTLDLT 115

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 49.3 bits (118), Expect = 4e-06
 Identities = 25/143 (17%), Positives = 49/143 (34%), Gaps = 16/143 (11%)

Query: 338 LEGLE-CPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLN 395
           +  L     L++L + +   S +           + KL  +     +   + P +  L N
Sbjct: 144 ISPLAGLTNLQYLSIGNAQVSDLT------PLANLSKLTTLKADDNKISDISP-LASLPN 196

Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVI 455
           L  + L    + DV+ +    NL I++ +   I   P        L   ++        I
Sbjct: 197 LIEVHLKNNQISDVSPLANTSNLFIVTLTNQTITNQPVF--YNNNLVVPNVVKGPSGAPI 254

Query: 456 APNVISSLIRLEELYMSNCFVEW 478
           AP  IS     +    ++  + W
Sbjct: 255 APATIS-----DNGTYASPNLTW 272

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 66.9 bits (164), Expect = 9e-12
 Identities = 56/362 (15%), Positives = 113/362 (31%), Gaps = 97/362 (26%)

Query: 344 PQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCL 401
           P    L + +N    +I  + +  F  +K L  +     +   + P     L+ L+ L L
Sbjct: 52  PDTALLDLQNN----KITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYL 107

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLS-NCFKLKVIAPNV 459
            +  L ++      K L+ L    + I K+ +     L ++  ++L  N  K   I    
Sbjct: 108 SKNQLKELPE-KMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA 166

Query: 460 ISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFF 519
              + +L  + +++          N  TI   L      P LT L               
Sbjct: 167 FQGMKKLSYIRIADT---------NITTIPQGL-----PPSLTELH-------------- 198

Query: 520 ARKLERFKI-SVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSK 577
              L+  KI  V  A+                           L  L L  NS + + + 
Sbjct: 199 ---LDGNKITKVDAASLKGLNN---------------------LAKLGLSFNSISAVDNG 234

Query: 578 KLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLH 635
            L    ++  L L+  KL  +   L +        ++ +++ NN         +  +  +
Sbjct: 235 SLANTPHLRELHLNNNKLVKVPGGLADH-----KYIQVVYLHNNN--------ISAIGSN 281

Query: 636 DAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLE 695
           D  P   +    +   +       L     N ++   ++      + F     +C+    
Sbjct: 282 DFCPPGYNTKKASYSGV------SL---FSNPVQYWEIQ-----PSTF-----RCVYVRA 322

Query: 696 TI 697
            +
Sbjct: 323 AV 324

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 58.1 bits (141), Expect = 7e-09
 Identities = 27/174 (15%), Positives = 55/174 (31%), Gaps = 37/174 (21%)

Query: 332 SSIHE-LLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI 390
           + + + +  GL   Q+  + + +N       +    F GMKKL  +        ++P  +
Sbjct: 134 TKVRKSVFNGL--NQMIVVELGTN-PLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGL 190

Query: 391 ----------------------DHLLNLQTLCLDQCILGDVA--IIGKLKNLEILSFSGS 426
                                   L NL  L L    +  V    +    +L  L  + +
Sbjct: 191 PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNN 250

Query: 427 GIVKLPEELGQLTKLRHLDLS-NCFKLKVIAPNVI------SSLIRLEELYMSN 473
            +VK+P  L     ++ + L  N   +  I  N        +       + + +
Sbjct: 251 KLVKVPGGLADHKYIQVVYLHNN--NISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 43.5 bits (103), Expect = 3e-04
 Identities = 26/155 (16%), Positives = 59/155 (38%), Gaps = 16/155 (10%)

Query: 944  VFPNLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKL 1003
            +   L+EL ++  +I  +    F   L   + V+ L  + + ++G   G  +    L  +
Sbjct: 119  MPKTLQELRVHENEITKVRKSVF-NGL-NQMIVVELGTNPLKSSGIENGAFQGMKKLSYI 176

Query: 1004 RLDGCSCKEI----LSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVD 1059
            R+   +   I      +   L   G K+ ++ +  L  LN+L +L    + + +    VD
Sbjct: 177  RIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISA----VD 232

Query: 1060 DVLIHGCDSLLILLPSS------SVSFWNLTSLEV 1088
            +  +     L  L  ++           +   ++V
Sbjct: 233  NGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQV 267

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 42.7 bits (101), Expect = 5e-04
 Identities = 53/277 (19%), Positives = 96/277 (34%), Gaps = 65/277 (23%)

Query: 782  VFPSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHL 841
            + P    LDL Q N  KI    +    F   +NL  LIL    K+  + S         L
Sbjct: 50   LPPDTALLDL-QNN--KITE--IKDGDFKNLKNLHTLILINN-KISKI-SPGAFAPLVKL 102

Query: 842  QHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALK 901
            + L ++   +L+E+           P  +   L  LR+    ++  +   +  +    + 
Sbjct: 103  ERLYLSKN-QLKEL-----------PEKMPKTLQELRVHEN-EITKVRKSV-FNGLNQMI 148

Query: 902  VLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMI 961
            V+ +                      N L +   ++  F  +    L  + +   +I  I
Sbjct: 149  VVEL--------------------GTNPLKSSGIENGAF--QGMKKLSYIRIADTNITTI 186

Query: 962  WHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEI-------L 1014
                 PQ L  SL  L L  + ++        L+  NNL KL L   S   +        
Sbjct: 187  -----PQGLPPSLTELHLDGNKITK--VDAASLKGLNNLAKLGLSFNSISAVDNGSLANT 239

Query: 1015 SNDGHLDKHGGKLAQI-------KSLRLVRLNDLNQL 1044
             +   L  +  KL ++       K +++V L++ N +
Sbjct: 240  PHLRELHLNNNKLVKVPGGLADHKYIQVVYLHN-NNI 275

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 67.6 bits (165), Expect = 1e-11
 Identities = 44/372 (11%), Positives = 94/372 (25%), Gaps = 88/372 (23%)

Query: 333 SIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SID 391
           +IHE+ +     + +   +  +                  +K +D        +    + 
Sbjct: 1   AIHEIKQNG--NRYKIEKVTDSSLK---QALASLRQSAWNVKELDLSGNPLSQISAADLA 55

Query: 392 HLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPE-----------------E 434
               L+ L L   +L +   +  L  L  L  + + + +L                    
Sbjct: 56  PFTKLELLNLSSNVLYETLDLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS 115

Query: 435 LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDE 494
             +    +++ L+N  K+ ++         R++ L +            N     +  + 
Sbjct: 116 CSRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKL----------NEIDTVNFAEL 164

Query: 495 LMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLF 554
                 L  L +     N +               V                        
Sbjct: 165 AASSDTLEHLNL---QYNFI-------------YDVKGQVVFA----------------- 191

Query: 555 MINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLK 612
                  L+TL L  N       + +    V ++ L   KL  I+  L          L+
Sbjct: 192 ------KLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFS-----QNLE 240

Query: 613 HLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIR 672
           H  ++ N              L D F   + +       ++++        +   L    
Sbjct: 241 HFDLRGNG--------FHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYG 292

Query: 673 VEHCGQLSNIFL 684
              C  L   F 
Sbjct: 293 AYCCEDLPAPFA 304

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 67.2 bits (164), Expect = 2e-11
 Identities = 32/280 (11%), Positives = 71/280 (25%), Gaps = 33/280 (11%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVD--FCRMQFFSLPPSIDHLLNLQTLCL 401
              + +Y+ +N  +    + +       +++ +D     +   +          L+ L L
Sbjct: 120 QGKKNIYLANNKIT---MLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNL 176

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
               + DV        L+ L  S + +  +  E      +  + L N  KL +I    + 
Sbjct: 177 QYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEFQSAAGVTWISLRNN-KLVLI-EKALR 234

Query: 462 SLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFAR 521
               LE   +            N     +  D      R+ T+    +    L       
Sbjct: 235 FSQNLEHFDLRG----------NGFHCGTLRDFFSKNQRVQTV--AKQTVKKLTGQNEEE 282

Query: 522 KLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEG 581
                    G        A   D    L          +    L  + + T     + E 
Sbjct: 283 CTVPTLGHYGAYCCEDLPAPFADRLIAL--------KRKEHALLSGQGSETERLECEREN 334

Query: 582 IKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNN 619
                 +     + + + + +             L  +  
Sbjct: 335 QARQREIDALKEQYRTVIDQVTLR----KQAKITLEQKKK 370

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 67.5 bits (165), Expect = 1e-11
 Identities = 52/289 (17%), Positives = 87/289 (30%), Gaps = 67/289 (23%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLD 402
               +L +  N       +    F  +  L+V+   R     +     + L +L TL L 
Sbjct: 75  SNTRYLNLMENNIQ---MIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELF 131

Query: 403 QCILGDVA--IIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNV 459
              L  +       L  L  L    + I  +P     ++  L  LDL    KL+ I+   
Sbjct: 132 DNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGA 191

Query: 460 ISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKND-NILPEGF 518
              L  L+ L +  C +               +  L  L  L  LE+   N    +  G 
Sbjct: 192 FEGLFNLKYLNLGMCNI-------------KDMPNLTPLVGLEELEMS-GNHFPEIRPGS 237

Query: 519 FARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSK 577
           F   L                                      L+ L +  +  + I   
Sbjct: 238 F-HGLSS------------------------------------LKKLWVMNSQVSLIERN 260

Query: 578 KLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMC 624
             +G+ ++  L L    L  + + LF         L  LH+ +NP + C
Sbjct: 261 AFDGLASLVELNLAHNNLSSLPHDLF----TPLRYLVELHLHHNP-WNC 304

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 59.4 bits (144), Expect = 5e-09
 Identities = 54/290 (18%), Positives = 101/290 (34%), Gaps = 58/290 (20%)

Query: 372 KLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIV 429
           +   V   R     +P  I    N + L L +  +  +       L +LE+L    + I 
Sbjct: 55  QFSKVVCTRRGLSEVPQGIPS--NTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIR 112

Query: 430 KLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETI 488
           ++       L  L  L+L +   L VI       L +L EL++ N  +E         +I
Sbjct: 113 QIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELWLRNNPIE---------SI 162

Query: 489 NSRLDELMHLPRLTTLEVHVKND-NILPEGFFA--RKLERFKISVGEAAFLP-FGATSND 544
            S       +P L  L++        + EG F     L+   + +     +P        
Sbjct: 163 PSYA--FNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVG- 219

Query: 545 ACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLF 601
                            L  L++  N    I      G+ +++ L +   ++  I+   F
Sbjct: 220 -----------------LEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAF 262

Query: 602 ELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF---PLLESLNLYN 648
           +    G + L  L++ +N        ++  +P HD F     L  L+L++
Sbjct: 263 D----GLASLVELNLAHN--------NLSSLP-HDLFTPLRYLVELHLHH 299

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 48.2 bits (115), Expect = 1e-05
 Identities = 42/242 (17%), Positives = 71/242 (29%), Gaps = 71/242 (29%)

Query: 784  PSLEALDLR--QINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHL 841
             SL  L+L    +         + +  F     L  L L     ++ +  +        L
Sbjct: 123  ASLNTLELFDNWLT-------VIPSGAFEYLSKLRELWLRNN-PIESI-PSYAFNRVPSL 173

Query: 842  QHLEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLR--------LIGLPKLKSLYPGMH 893
              L++   ++L+ I               F GL  L+        +  +P L  L     
Sbjct: 174  MRLDLGELKKLEYI-----------SEGAFEGLFNLKYLNLGMCNIKDMPNLTPL----- 217

Query: 894  TSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFPNLEELGL 953
                  L+ L              +         N        S   L     +L++L +
Sbjct: 218  ----VGLEELE-------------MSG-------NHFPEIRPGSFHGL----SSLKKLWV 249

Query: 954  NGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG----CS 1009
                + +I    F   L  SL  L LA +++S+   P  L      L +L L      C 
Sbjct: 250  MNSQVSLIERNAF-DGL-ASLVELNLAHNNLSS--LPHDLFTPLRYLVELHLHHNPWNCD 305

Query: 1010 CK 1011
            C 
Sbjct: 306  CD 307

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 67.2 bits (164), Expect = 2e-11
 Identities = 56/347 (16%), Positives = 106/347 (30%), Gaps = 31/347 (8%)

Query: 346 LEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQC 404
              L +  N  S    +       + KL+++     +   L  S+      L+ L L   
Sbjct: 23  TTILNISQNYIS---ELWTSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN 79

Query: 405 ILGDVAIIGKLKNLEILSFSGSGIVKLPE--ELGQLTKLRHLDLSNCFKLKVIAPNVISS 462
            L  ++      NL+ L  S +    LP   E G +++L+ L LS    L+  +   I+ 
Sbjct: 80  KLVKISC-HPTVNLKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTT-HLEKSSVLPIAH 137

Query: 463 LIRLEE-LYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFAR 521
           L   +  L +   + E ED     +     L  +    +     + V    +        
Sbjct: 138 LNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNI 197

Query: 522 KLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEG 581
           K             +     +N     L+        +  +R L+L +  TT+    +  
Sbjct: 198 KCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQL-VWHTTVWYFSISN 256

Query: 582 IKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLL 641
           +K    L           L  L      Q+          +           +++ F  +
Sbjct: 257 VKLQGQLDFRDFDYSGTSLKALS---IHQVVSDVFGFPQSY-----------IYEIFSNM 302

Query: 642 ESLNLY--NLMKLERICQDRLS-VQ----SFNELKTIRVEHCGQLSN 681
              N        +  +C  ++S       S N L     E+CG L+ 
Sbjct: 303 NIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTE 349

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 58.3 bits (141), Expect = 1e-08
 Identities = 32/194 (16%), Positives = 60/194 (30%), Gaps = 18/194 (9%)

Query: 345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKV--VDFCRMQFFSLPPSIDHLLNLQTLCLD 402
            L+ L +    S V        +     + +        +   +      +     L   
Sbjct: 274 SLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCP-SKISPFLHLDFS 332

Query: 403 QCILGDVA--IIGKLKNLEILSFSGSGIVKLPEELG---QLTKLRHLDLSNCFKLKVIAP 457
             +L D      G L  LE L    + + +L +      Q+  L+ LD+S          
Sbjct: 333 NNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKK 392

Query: 458 NVISSLIRLEELYMSNC---FVEWEDEGPNSETI---NSRLDEL----MHLPRLTTLEVH 507
              S    L  L MS+       +    P  + +   ++++  +    + L  L  L V 
Sbjct: 393 GDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVKLEALQELNVA 452

Query: 508 VKNDNILPEGFFAR 521
                 +P+G F R
Sbjct: 453 SNQLKSVPDGIFDR 466

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 55.3 bits (133), Expect = 1e-07
 Identities = 45/309 (14%), Positives = 101/309 (32%), Gaps = 67/309 (21%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSN--GSSVEINVPEKFFTGMKKLKVVDFCRMQFF 384
           I    +S   +L+ +    + +  + +      ++    +   T +K L +       F 
Sbjct: 230 IETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFG 289

Query: 385 SLPPSI-DHLLNLQTLCLDQCILGDVAI--IGKLKNLEILSFSGSGIVKLP-EELGQLTK 440
                I +   N+            V +    K+     L FS + +     E  G LT+
Sbjct: 290 FPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTE 349

Query: 441 LRHLDLSNCFKLKVI--APNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHL 498
           L  L L    +LK +     + + +  L++L +S           NS + + +  +    
Sbjct: 350 LETLILQMN-QLKELSKIAEMTTQMKSLQQLDISQ----------NSVSYDEKKGDCSWT 398

Query: 499 PRLTTLEVHVKNDNILPEGFF---ARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFM 555
             L +L +   + NIL +  F     +++   +   +   +P          +L      
Sbjct: 399 KSLLSLNM---SSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQV------VKLE----- 444

Query: 556 INDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLH 615
                 L+ L +  N                     +L+ + + +F+      + L+ + 
Sbjct: 445 -----ALQELNVASN---------------------QLKSVPDGIFD----RLTSLQKIW 474

Query: 616 VQNNPDFMC 624
           +  NP + C
Sbjct: 475 LHTNP-WDC 482

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 42.9 bits (101), Expect = 7e-04
 Identities = 60/425 (14%), Positives = 111/425 (26%), Gaps = 82/425 (19%)

Query: 784  PSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQH 843
              LE LDL         H++L         NL  L L        +       +   L+ 
Sbjct: 69   QELEYLDLS--------HNKLVKISCHPTVNLKHLDLSFNA-FDALPICKEFGNMSQLKF 119

Query: 844  LEIACC-------ERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYP------ 890
            L ++           +  +                     L+      L  ++P      
Sbjct: 120  LGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKEFH 179

Query: 891  ---GMHTSEWPALKVLNVLACDQVTVFASELFHFCKISEENKLDTPARQSLFFLEKVFP- 946
                +       L++ N+    +    +  L    K+    KL      ++      F  
Sbjct: 180  FILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIR 239

Query: 947  --------NLEELGLNGKDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPL-GLLERF 997
                     +    ++   ++         +   SLK L +        GFP   + E F
Sbjct: 240  ILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIF 299

Query: 998  NNLEKLRLDGCS-------CKEILSNDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQ 1050
            +N+                C   +S   HLD     L          L +L  L  + +Q
Sbjct: 300  SNMNIKNFTVSGTRMVHMLCPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQ 359

Query: 1051 MDSMFQYVDDVLIHGCDSLLILLPSSSVSFWNLTSLEV--SSCKKLINLVASSAAKSLVA 1108
            +                     L   +     + SL+    S   +             +
Sbjct: 360  LKE-------------------LSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKS 400

Query: 1109 LVKMQVFGCRAMTQVVKSEGNQLAKEEIVFSKL-KRLSLVDLDS--LASFCSGNYIFKFP 1165
            L              +    N L   + +F  L  R+ ++DL S  + S      + K  
Sbjct: 401  L------------LSLNMSSNILT--DTIFRCLPPRIKVLDLHSNKIKSIPKQ--VVKLE 444

Query: 1166 SLEYL 1170
            +L+ L
Sbjct: 445  ALQEL 449

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 65.1 bits (159), Expect = 3e-11
 Identities = 33/179 (18%), Positives = 69/179 (38%), Gaps = 21/179 (11%)

Query: 338 LEGLE-CPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLN 395
           ++ L     L +L++D N    +           +KKLK +         +   + HL  
Sbjct: 83  IKPLANLKNLGWLFLDENKVKDLS------SLKDLKKLKSLSLEHNGISDING-LVHLPQ 135

Query: 396 LQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVI 455
           L++L L    + D+ ++ +L  L+ LS   + I  +   L  LTKL++L LS    +  +
Sbjct: 136 LESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDI-VPLAGLTKLQNLYLSKN-HISDL 193

Query: 456 APNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNIL 514
               ++ L  L+ L + +     +          +    L+    +   +  +    I+
Sbjct: 194 RA--LAGLKNLDVLELFSQECLNKPI--------NHQSNLVVPNTVKNTDGSLVTPEII 242

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 61.6 bits (150), Expect = 4e-10
 Identities = 22/118 (18%), Positives = 43/118 (36%), Gaps = 17/118 (14%)

Query: 390 IDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNC 449
            D         L +  + D     +L +++ +  + S I  + + +  L  +  L L+  
Sbjct: 20  DDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSV-QGIQYLPNVTKLFLNGN 78

Query: 450 FKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVH 507
            KL  I P  +++L  L  L++    V               L  L  L +L +L + 
Sbjct: 79  -KLTDIKP--LANLKNLGWLFLDENKV-------------KDLSSLKDLKKLKSLSLE 120

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 57.8 bits (140), Expect = 7e-09
 Identities = 24/136 (17%), Positives = 53/136 (38%), Gaps = 18/136 (13%)

Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
              +    +  +          + L ++  +  +   +  V  I  L N+  L  +G+ +
Sbjct: 22  AFAETIKDNLKKKSVTDAVT-QNELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKL 80

Query: 429 VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETI 488
             + + L  L  L  L L    K+K ++   +  L +L+ L + +  +            
Sbjct: 81  TDI-KPLANLKNLGWLFLDEN-KVKDLSS--LKDLKKLKSLSLEHNGI------------ 124

Query: 489 NSRLDELMHLPRLTTL 504
            S ++ L+HLP+L +L
Sbjct: 125 -SDINGLVHLPQLESL 139

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 63.5 bits (155), Expect = 6e-11
 Identities = 33/187 (17%), Positives = 63/187 (33%), Gaps = 26/187 (13%)

Query: 319 DALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVD 377
             L      ++   S+ +L+   E   ++    D++   S+              LK + 
Sbjct: 16  PGLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLA------GMQFFTNLKELH 69

Query: 378 FCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ 437
               Q   L P +  L  L+ L +++  L ++  I     L  L    + +    + L  
Sbjct: 70  LSHNQISDLSP-LKDLTKLEELSVNRNRLKNLNGIPSA-CLSRLFLDNNELRDT-DSLIH 126

Query: 438 LTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMH 497
           L  L  L + N  KLK I    +  L +LE L +    +             +    L  
Sbjct: 127 LKNLEILSIRNN-KLKSIVM--LGFLSKLEVLDLHGNEI-------------TNTGGLTR 170

Query: 498 LPRLTTL 504
           L ++  +
Sbjct: 171 LKKVNWI 177

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 53.1 bits (128), Expect = 1e-07
 Identities = 23/137 (16%), Positives = 51/137 (37%), Gaps = 10/137 (7%)

Query: 338 LEGLECPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNL 396
           L G+    L  L++D+N     +          +K L+++     +  S+   +  L  L
Sbjct: 100 LNGIPSACLSRLFLDNNELRDTD------SLIHLKNLEILSIRNNKLKSIVM-LGFLSKL 152

Query: 397 QTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
           + L L    + +   + +LK +  +  +G   V  P +     +L   +       + I+
Sbjct: 153 EVLDLHGNEITNTGGLTRLKKVNWIDLTGQKCVNEPVKY--QPELYITNTVKDPDGRWIS 210

Query: 457 PNVISSLIRLEELYMSN 473
           P  IS+     +  +  
Sbjct: 211 PYYISNGGSYVDGCVLW 227

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 65.3 bits (159), Expect = 7e-11
 Identities = 59/418 (14%), Positives = 112/418 (26%), Gaps = 64/418 (15%)

Query: 321 LRKCYAISIRDSSIHELLEGLECPQLEFLYMD-SNGSSVEINVPEKFFTGMKKLKVVDFC 379
           + +          +HEL +      LE L    +  + +     E      + L  V   
Sbjct: 171 MEESSFSEKDGKWLHELAQH--NTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVG 228

Query: 380 RMQFFSLPPSIDHLLNLQTLCL-----DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE 434
             +   L        NL+  C      D  +      +   + L  L  S  G  ++P  
Sbjct: 229 DFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPIL 288

Query: 435 LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF------------------- 475
                ++R LDL            +I     LE L   N                     
Sbjct: 289 FPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLR 348

Query: 476 VEWEDEGPNSETINSRLDE--LMHL----PRLTTLEVHVKNDNILPEGFFA-----RKLE 524
           +E   +    E     + +  L+ L      L  + V+V   +I  E   +     + L 
Sbjct: 349 IERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVS--DITNESLESIGTYLKNLC 406

Query: 525 RFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGI-- 582
            F++ V             D   R      ++   + LR     L    ++   L  I  
Sbjct: 407 DFRL-VLLDREERITDLPLDNGVR-----SLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQ 460

Query: 583 --KNVEYLCLDKLQ----GIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHD 636
              NV ++ L  +     G+          G   L+ L ++      C            
Sbjct: 461 YSPNVRWMLLGYVGESDEGLMEFS-----RGCPNLQKLEMRG-----CCFSERAIAAAVT 510

Query: 637 AFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRL 694
             P L  L +                + +  ++ I      +++    +   +    +
Sbjct: 511 KLPSLRYLWVQGYRASMTGQDLMQMARPYWNIELIPSRRVPEVNQQGEIREMEHPAHI 568

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 54.6 bits (131), Expect = 2e-07
 Identities = 58/499 (11%), Positives = 150/499 (30%), Gaps = 90/499 (18%)

Query: 634  LHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPR 693
            + +    L+S++    M +  +  DRL+    ++L+T++++ C   +   LLS      +
Sbjct: 107  ISNNLRQLKSVHFRR-MIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRK 165

Query: 694  LETIAVINCRNIQE----IFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFC---REV 746
            ++T+ +      ++    +  +   +  ++       +   +   +L  +   C     V
Sbjct: 166  IKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSV 225

Query: 747  EKNRQAQGLQETCYNEISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWH--DQL 804
            +            +   + L++     S   +  +    +  +  R++    + +     
Sbjct: 226  KVGDFEILELVGFFKAAANLEE-FCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNE 284

Query: 805  SAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQHLEIACC---ERLQEIISKGGT 861
               +FP    + +L L            ++++   +L+ LE         L+ +      
Sbjct: 285  MPILFPFAAQIRKLDLLYALLETEDH-CTLIQKCPNLEVLETRNVIGDRGLEVLAQYC-- 341

Query: 862  DDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHT----------SEWPALKVLNVLACDQV 911
                        L  LR+      + +                     L+ +  +    +
Sbjct: 342  ----------KQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMA-VYVSDI 390

Query: 912  TVFA-SELFHFCKISEENKL----------DTPARQSLFFLEKVFPNLEELGLNGK---- 956
            T  +   +  + K   + +L          D P    +  L      L       +    
Sbjct: 391  TNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGL 450

Query: 957  -DIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILS 1015
             D+ + + G +  +    ++ + L     S  G  +       NL+KL + GC      S
Sbjct: 451  TDLGLSYIGQYSPN----VRWMLLGYVGESDEGL-MEFSRGCPNLQKLEMRGCC----FS 501

Query: 1016 NDGHLDKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPS 1075
                +     KL  ++ L +                           + G D + +  P 
Sbjct: 502  ERA-IAAAVTKLPSLRYLWVQGYR---------------------ASMTGQDLMQMARPY 539

Query: 1076 SSVSFWNLTSLEVSSCKKL 1094
                 WN+  +      ++
Sbjct: 540  -----WNIELIPSRRVPEV 553

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 50.3 bits (120), Expect = 4e-06
 Identities = 61/408 (14%), Positives = 118/408 (28%), Gaps = 77/408 (18%)

Query: 367 FTGMKKLKVVDFCRMQFFSLPPS-------------IDHLLNLQTLCLDQCILGDVAIIG 413
           F  ++ LK+    R   F+L P               ++L  L+++   + I+ D+    
Sbjct: 72  FPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLD--- 128

Query: 414 KLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIR-LEELYMS 472
               L+ L+              +   L  L L  C          I +  R ++ L M 
Sbjct: 129 ----LDRLA------------KARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLME 172

Query: 473 NCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKN-DNILPEGFFA-----RKLERF 526
                 E +G     +        H   L  L  ++     I P+         R L   
Sbjct: 173 ESSFS-EKDGKWLHEL------AQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSV 225

Query: 527 KISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKL-------KLNSTTISSKKL 579
           K+   E   L     +              +     + + L       +L  + +   ++
Sbjct: 226 KVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEM 285

Query: 580 EGI----KNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVD-SMERVPL 634
             +      +  L L            L  +    L+ L  +N      I D  +E +  
Sbjct: 286 PILFPFAAQIRKLDLLYALLETEDHCTL-IQKCPNLEVLETRN-----VIGDRGLEVLAQ 339

Query: 635 HDAFPLLESLNLYNLMKLERICQDRLSV---------QSFNELKTIRVEHCGQLSNIFLL 685
           +     L+ L +      + +  +   V         Q   EL+ + V +   ++N  L 
Sbjct: 340 Y--CKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAV-YVSDITNESLE 396

Query: 686 SAAKCLPRLETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCL 733
           S    L  L    ++     + I  +   D  +    I   +LR    
Sbjct: 397 SIGTYLKNLCDFRLVLLDREERITDL-PLDNGVRSLLIGCKKLRRFAF 443

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 44.5 bits (105), Expect = 2e-04
 Identities = 57/404 (14%), Positives = 113/404 (27%), Gaps = 84/404 (20%)

Query: 784  PSLEALDLRQINVEKIWHDQLSAAMFPCFQNLTRLILWICPKLKYVFSASMLRSFEHLQH 843
             SLE L+       KI    L      C ++L  + +     L+ V       + E    
Sbjct: 192  TSLEVLNFYMTEFAKISPKDLETIARNC-RSLVSVKVGDFEILELVGFFKAAANLEEFCG 250

Query: 844  LEIACCERLQEIISKGGTDDQVTPNFVFPGLTTLRLIGLPKLKSLYPGMHTSEWPALKVL 903
              +     + E         ++           L  +G  ++  L+P         ++ L
Sbjct: 251  GSLNEDIGMPEKYMNLVFPRKLC-------RLGLSYMGPNEMPILFPFA-----AQIRKL 298

Query: 904  NVLACDQVTVFASELFHFCKISEE-NKLDTPARQSLFFLEKVFPNLEELGLNGKDIRMIW 962
            ++L     T     L   C   E     +    + L  L +    L+ L +         
Sbjct: 299  DLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIER------- 351

Query: 963  HGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDGCSCKEILSNDG--HL 1020
                        +   ++   + A      L +    LE + +        ++N+    +
Sbjct: 352  ---GADEQGMEDEEGLVSQRGLIA------LAQGCQELEYMAVYVSD----ITNESLESI 398

Query: 1021 DKHGGKLAQIKSLRLVRLNDLNQLWKEDSQMDSMFQYVDDVLIHGCDSLLILLPSSSVSF 1080
              +   L      RLV L+   ++   D  +D+  +     L+ GC  L           
Sbjct: 399  GTYLKNL---CDFRLVLLDREERI--TDLPLDNGVRS----LLIGCKKLRRFAFYLRQGG 449

Query: 1081 WNLTSLEV--SSCKKLINLVASSAAKSLVALVKMQVFGCRAMTQVVKSEGNQLAKEEIVF 1138
                 L         +  ++     +S   L++    GC                     
Sbjct: 450  LTDLGLSYIGQYSPNVRWMLLGYVGESDEGLMEF-SRGCP-------------------- 488

Query: 1139 SKLKRLSLVD-------LDSLASFCSGNYIFKFPSLEYLFVVGC 1175
              L++L +         + +  +          PSL YL+V G 
Sbjct: 489  -NLQKLEMRGCCFSERAIAAAVTKL--------PSLRYLWVQGY 523

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 65.3 bits (160), Expect = 1e-10
 Identities = 26/124 (20%), Positives = 42/124 (33%), Gaps = 12/124 (9%)

Query: 385 SLPPSIDHLLNLQTLCLDQCIL-GDVAIIGKLKNLEILSFSG---SGIVKLPEELGQLTK 440
           ++  S+  L  L++L L    + G V+      +L  L  S    SG V     LG  + 
Sbjct: 68  AVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSG 127

Query: 441 LRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPR 500
           L+ L++S+         +    L  LE L +S   +        S               
Sbjct: 128 LKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSI--------SGANVVGWVLSDGCGE 179

Query: 501 LTTL 504
           L  L
Sbjct: 180 LKHL 183

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 64.5 bits (158), Expect = 2e-10
 Identities = 29/161 (18%), Positives = 53/161 (32%), Gaps = 25/161 (15%)

Query: 339 EGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQT 398
            GL+   LE L + +N  S    V      G  +LK +     +  S    +   +NL+ 
Sbjct: 146 GGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKI-SGDVDVSRCVNLEF 204

Query: 399 LCLDQCIL-GDVAIIGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLS--------- 447
           L +        +  +G    L+ L  SG+ +       +   T+L+ L++S         
Sbjct: 205 LDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP 264

Query: 448 --NCFKLKV-----------IAPNVISSLIRLEELYMSNCF 475
                 L+            I   +  +   L  L +S   
Sbjct: 265 PLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH 305

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 64.2 bits (157), Expect = 2e-10
 Identities = 32/137 (23%), Positives = 55/137 (40%), Gaps = 12/137 (8%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSIDHLLNLQTLCL 401
           C  L+ L +  N  S +        T   +LK+++    QF   +PP    L +LQ L L
Sbjct: 222 CSALQHLDISGNKLSGDF--SRAIST-CTELKLLNISSNQFVGPIPPLP--LKSLQYLSL 276

Query: 402 DQCIL-GDV--AIIGKLKNLEILSFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLK-VIA 456
            +    G++   + G    L  L  SG+     +P   G  + L  L LS+       + 
Sbjct: 277 AENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN-NFSGELP 335

Query: 457 PNVISSLIRLEELYMSN 473
            + +  +  L+ L +S 
Sbjct: 336 MDTLLKMRGLKVLDLSF 352

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 56.8 bits (138), Expect = 3e-08
 Identities = 35/139 (25%), Positives = 51/139 (36%), Gaps = 13/139 (9%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSI--DHLLNLQTL 399
              L+ L +  N  S E+  PE        L  +D     F   + P++  +    LQ L
Sbjct: 342 MRGLKVLDLSFNEFSGEL--PESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQEL 399

Query: 400 CLDQCIL-GDV-AIIGKLKNLEILSFSG---SGIVKLPEELGQLTKLRHLDLSNCFKLKV 454
            L      G +   +     L  L  S    SG   +P  LG L+KLR L L     L+ 
Sbjct: 400 YLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSG--TIPSSLGSLSKLRDLKLWLN-MLEG 456

Query: 455 IAPNVISSLIRLEELYMSN 473
             P  +  +  LE L +  
Sbjct: 457 EIPQELMYVKTLETLILDF 475

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 53.8 bits (130), Expect = 3e-07
 Identities = 32/115 (27%), Positives = 47/115 (40%), Gaps = 15/115 (13%)

Query: 342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSIDHLLNLQTLC 400
              +L  L +  N    EI  P+     +K L+ +          +P  + +  NL  + 
Sbjct: 440 SLSKLRDLKLWLNMLEGEI--PQ-ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWIS 496

Query: 401 LDQCILGDV--AIIGKLKNLEIL-----SFSGSGIVKLPEELGQLTKLRHLDLSN 448
           L    L       IG+L+NL IL     SFSG+    +P ELG    L  LDL+ 
Sbjct: 497 LSNNRLTGEIPKWIGRLENLAILKLSNNSFSGN----IPAELGDCRSLIWLDLNT 547

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 48.4 bits (116), Expect = 2e-05
 Identities = 22/130 (16%), Positives = 43/130 (33%), Gaps = 12/130 (9%)

Query: 351 MDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCIL--GD 408
           + +N  + +  V  K     K+                 ++ L       +   +     
Sbjct: 565 IAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHT 624

Query: 409 VAIIGKLKNLEILSFSG---SGIVKLPEELGQLTKLRHLDLS-NCFKLK-VIAPNVISSL 463
                   ++  L  S    SG   +P+E+G +  L  L+L  N   +   I P+ +  L
Sbjct: 625 SPTFDNNGSMMFLDMSYNMLSG--YIPKEIGSMPYLFILNLGHN--DISGSI-PDEVGDL 679

Query: 464 IRLEELYMSN 473
             L  L +S+
Sbjct: 680 RGLNILDLSS 689

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 64.2 bits (157), Expect = 1e-10
 Identities = 40/173 (23%), Positives = 67/173 (38%), Gaps = 23/173 (13%)

Query: 342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
             P LE L    N  +    +PE   + +K L V +        LPP       L+ L +
Sbjct: 89  LPPHLESLVASCNSLT---ELPELPQS-LKSLLVDNNNLKALSDLPP------LLEYLGV 138

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
               L  +  +     L+I+    + + KLP+    L     +   N  +L+ +    + 
Sbjct: 139 SNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLE---FIAAGNN-QLEELPE--LQ 192

Query: 462 SLIRLEELYMSNCFVEWEDEGPNS-ETIN------SRLDELMHLPRLTTLEVH 507
           +L  L  +Y  N  ++   + P S E+I         L EL +LP LTT+   
Sbjct: 193 NLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLPFLTTIYAD 245

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 54.2 bits (131), Expect = 2e-07
 Identities = 29/147 (19%), Positives = 54/147 (36%), Gaps = 15/147 (10%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSL 386
           I + ++S+ +L +    P LEF+   +N       +PE     +  L  +         L
Sbjct: 158 IDVDNNSLKKLPDLP--PSLEFIAAGNNQLE---ELPE--LQNLPFLTAIYADNNSLKKL 210

Query: 387 PPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDL 446
           P      L+L+++     IL ++  +  L  L  +    + +  LP+    L  L   D 
Sbjct: 211 PDL---PLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDN 267

Query: 447 SNCFKLKVIAPNVISSLIRLEELYMSN 473
                L  + P +  SL  L+      
Sbjct: 268 ----YLTDL-PELPQSLTFLDVSENIF 289

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 24/144 (16%), Positives = 40/144 (27%), Gaps = 28/144 (19%)

Query: 385 SLPPSIDHLLNLQTLCLDQCILGDVAIIG---------------KLKNLEILSFSGSGIV 429
            +P   +++ +              A  G                 +    L  +  G+ 
Sbjct: 25  EMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELELNNLGLS 84

Query: 430 KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETIN 489
            LPE    L     L  S    L  + P +  SL  L     +       D  P  E + 
Sbjct: 85  SLPELPPHLE---SLVASCN-SLTEL-PELPQSLKSLLVDNNNLK--ALSDLPPLLEYLG 137

Query: 490 ------SRLDELMHLPRLTTLEVH 507
                  +L EL +   L  ++V 
Sbjct: 138 VSNNQLEKLPELQNSSFLKIIDVD 161

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 43.1 bits (102), Expect = 5e-04
 Identities = 20/132 (15%), Positives = 42/132 (31%), Gaps = 17/132 (12%)

Query: 342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
             P+LE L    N  +    VPE      + LK +          P   + + +L+    
Sbjct: 335 LPPRLERLIASFNHLA---EVPE----LPQNLKQLHVEYNPLREFPDIPESVEDLRMNSH 387

Query: 402 DQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVIS 461
                    +    +NL+ L    + + + P+    +  LR        ++         
Sbjct: 388 LA------EVPELPQNLKQLHVETNPLREFPDIPESVEDLRMNSE----RVVDPYEFAHE 437

Query: 462 SLIRLEELYMSN 473
           +  +LE+    +
Sbjct: 438 TTDKLEDDVFEH 449

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 43.1 bits (102), Expect = 5e-04
 Identities = 36/242 (14%), Positives = 71/242 (29%), Gaps = 55/242 (22%)

Query: 415 LKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC 474
              L+      S + ++P E   +        +   + +  AP        +    + +C
Sbjct: 10  NTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWS-EWERNAPPGNGEQREMAVSRLRDC 68

Query: 475 FVEWEDEGPNSETIN------SRLDELMHLPRLTTLEVHVKNDNILPEGFFA-RKLERFK 527
                     +  +       S L EL   P L +L     +   LPE   + + L    
Sbjct: 69  L------DRQAHELELNNLGLSSLPEL--PPHLESLVASCNSLTELPELPQSLKSLLVDN 120

Query: 528 ISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNS-TTISSKKLEGIKNVE 586
            ++   + LP                        L  L +  N    +    L+    ++
Sbjct: 121 NNLKALSDLP----------------------PLLEYLGVSNNQLEKLPE--LQNSSFLK 156

Query: 587 YLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNL 646
            + +D      N L +L  +    L+ +   NN         +E +P     P L ++  
Sbjct: 157 IIDVD-----NNSLKKLP-DLPPSLEFIAAGNN--------QLEELPELQNLPFLTAIYA 202

Query: 647 YN 648
            N
Sbjct: 203 DN 204

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 64.4 bits (156), Expect = 1e-10
 Identities = 35/200 (17%), Positives = 64/200 (32%), Gaps = 17/200 (8%)

Query: 309 NEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFT 368
            E+      E    K       ++    L   L    L+ L  +         +  K   
Sbjct: 358 VEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTL--KAVD 415

Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGI 428
            M+   + D                 +++ L L    L  +  + +L  +  L  S + +
Sbjct: 416 PMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHLDLSHNRL 475

Query: 429 VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMS-NCFVEWEDEGPNSET 487
             LP  L  L  L  L  S+   L+ +    +++L RL+EL +  N   +          
Sbjct: 476 RALPPALAALRCLEVLQASDN-ALENVDG--VANLPRLQELLLCNNRLQQSAA------- 525

Query: 488 INSRLDELMHLPRLTTLEVH 507
               +  L+  PRL  L + 
Sbjct: 526 ----IQPLVSCPRLVLLNLQ 541

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 59.0 bits (142), Expect = 6e-09
 Identities = 23/134 (17%), Positives = 49/134 (36%), Gaps = 10/134 (7%)

Query: 319 DALRKCYAISIRDSSIHEL-LEGLECPQLEFLYMDSNG-SSVEINVPEKFFTGMKKLKVV 376
           D +R  Y   +R   + E  +  +E   +  L++     + +           +  +  +
Sbjct: 415 DPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLC------HLEQLLLVTHL 468

Query: 377 DFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPE--E 434
           D    +  +LPP++  L  L+ L      L +V  +  L  L+ L    + + +      
Sbjct: 469 DLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQQSAAIQP 528

Query: 435 LGQLTKLRHLDLSN 448
           L    +L  L+L  
Sbjct: 529 LVSCPRLVLLNLQG 542

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 61.2 bits (149), Expect = 6e-10
 Identities = 53/322 (16%), Positives = 95/322 (29%), Gaps = 61/322 (18%)

Query: 343 CP-----QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNL 396
           CP      L  +     G      VP++       L   D        L       L +L
Sbjct: 27  CPFGCHCHLRVVQCSDLGLK---AVPKEISPDTTLL---DLQNNDISELRKDDFKGLQHL 80

Query: 397 QTLCLDQCILGDVA--IIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKV 454
             L L    +  +       L+ L+ L  S + +V++P  L   + L  L + +  +++ 
Sbjct: 81  YALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEIPPNL--PSSLVELRIHDN-RIRK 137

Query: 455 IAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNIL 514
           +   V S L  +  + M            N    +          +L  L +       +
Sbjct: 138 VPKGVFSGLRNMNCIEMGG----------NPLENSGFEPGAFDGLKLNYLRISEAKLTGI 187

Query: 515 PEGFFAR----KLERFKIS-VGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKL 569
           P+          L+  KI  +     L +                       L  L L  
Sbjct: 188 PKDLPETLNELHLDHNKIQAIELEDLLRYSK---------------------LYRLGLGH 226

Query: 570 NS-TTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIV 626
           N    I +  L  +  +  L LD  KL  +   L +L       L+ +++  N      V
Sbjct: 227 NQIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDL-----KLLQVVYLHTNNITKVGV 281

Query: 627 DSMERVPLHDAFPLLESLNLYN 648
           +    V           ++L+N
Sbjct: 282 NDFCPVGFGVKRAYYNGISLFN 303

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 57.3 bits (139), Expect = 1e-08
 Identities = 29/141 (20%), Positives = 48/141 (34%), Gaps = 11/141 (7%)

Query: 336 ELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLN 395
            +  GL    +  + M  N            F G+ KL  +     +   +P  +     
Sbjct: 141 GVFSGL--RNMNCIEMGGN-PLENSGFEPGAFDGL-KLNYLRISEAKLTGIPKDL--PET 194

Query: 396 LQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKL 452
           L  L LD   +  +    + +   L  L    + I  +    L  L  LR L L N  KL
Sbjct: 195 LNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNN-KL 253

Query: 453 KVIAPNVISSLIRLEELYMSN 473
             + P  +  L  L+ +Y+  
Sbjct: 254 SRV-PAGLPDLKLLQVVYLHT 273

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 55.4 bits (134), Expect = 5e-08
 Identities = 25/141 (17%), Positives = 44/141 (31%), Gaps = 15/141 (10%)

Query: 344 PQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCL 401
             L  L++D N    +I  +  +      KL  +     Q   +       L  L+ L L
Sbjct: 193 ETLNELHLDHN----KIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHL 248

Query: 402 DQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEE-------LGQLTKLRHLDLS-NCFKL 452
           D   L  V A +  LK L+++    + I K+            +      + L  N    
Sbjct: 249 DNNKLSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFNNPVPY 308

Query: 453 KVIAPNVISSLIRLEELYMSN 473
             + P     +     +   N
Sbjct: 309 WEVQPATFRCVTDRLAIQFGN 329

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 60.6 bits (147), Expect = 1e-09
 Identities = 43/296 (14%), Positives = 94/296 (31%), Gaps = 54/296 (18%)

Query: 416 KNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC 474
           +N   L F  + +  + +        L  +++S    L+VI  +V S+L +L E+ +   
Sbjct: 30  RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA 89

Query: 475 FVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKI------ 528
                    N   IN       +LP L  L +       LP+      L++  +      
Sbjct: 90  --------NNLLYINPEA--FQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNI 139

Query: 529 ---SVGEAAFLPFGATSNDACFRLSW------PLFMINDSETLRTLKLKLNS-TTISSKK 578
              ++   +F+  G +       L+            N ++         N+   + +  
Sbjct: 140 NIHTIERNSFV--GLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV 197

Query: 579 LEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAF 638
             G      L +      +  +  L + G   LK L  ++         +++++P  +  
Sbjct: 198 FHGASGPVILDIS-----RTRIHSLPSYGLENLKKLRARSTY-------NLKKLPTLEKL 245

Query: 639 PLLESLNLYN-------------LMKLERICQDRLSVQSFNELKTIRVEHCGQLSN 681
             L   +L               + +L  IC   +  Q  + +   R +      +
Sbjct: 246 VALMEASLTYPSHCCAFANWRRQISELHPICNKSILRQEVDYMTQARGQRSSLAED 301

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 54.1 bits (130), Expect = 1e-07
 Identities = 31/197 (15%), Positives = 65/197 (32%), Gaps = 27/197 (13%)

Query: 346 LEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPS--IDHLLNLQTLCLDQ 403
              L        V   + +  F+G   L+ ++  +     +  +    +L  L  + +++
Sbjct: 32  AIELRFVLTKLRV---IQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEK 88

Query: 404 C-----ILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKVIAP 457
                 I  +      L NL+ L  S +GI  LP+       +   LD+ +   +  I  
Sbjct: 89  ANNLLYINPEA--FQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIER 146

Query: 458 NVISSL-IRLEELYMSNCFVEWEDE----GPNSETI----NSRLDEL-----MHLPRLTT 503
           N    L      L+++   ++        G   + +    N+ L+EL             
Sbjct: 147 NSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVI 206

Query: 504 LEVHVKNDNILPEGFFA 520
           L++     + LP     
Sbjct: 207 LDISRTRIHSLPSYGLE 223

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 59.0 bits (143), Expect = 3e-09
 Identities = 36/162 (22%), Positives = 55/162 (33%), Gaps = 18/162 (11%)

Query: 362 VPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQCILGDVAIIGKLKNLEI 420
           +P         L          ++   +       L  L LD+  L  + + G L  L  
Sbjct: 25  LPPDLPKDTTIL---HLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGT 81

Query: 421 LSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWED 480
           L  S + +  LP     L  L  LD+S   +L  +    +  L  L+ELY+         
Sbjct: 82  LDLSHNQLQSLPLLGQTLPALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG------- 133

Query: 481 EGPNS-ETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFAR 521
              N  +T+   L  L   P+L  L +   N   LP G    
Sbjct: 134 ---NELKTLPPGL--LTPTPKLEKLSLANNNLTELPAGLLNG 170

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 42.8 bits (101), Expect = 4e-04
 Identities = 24/120 (20%), Positives = 48/120 (40%), Gaps = 8/120 (6%)

Query: 332 SSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI- 390
            S+  L + L  P L  L +  N  +   ++P     G+ +L+ +     +  +LPP + 
Sbjct: 90  QSLPLLGQTL--PALTVLDVSFNRLT---SLPLGALRGLGELQELYLKGNELKTLPPGLL 144

Query: 391 DHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN 448
                L+ L L    L ++   ++  L+NL+ L    + +  +P+       L    L  
Sbjct: 145 TPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 58.1 bits (141), Expect = 4e-09
 Identities = 28/133 (21%), Positives = 53/133 (39%), Gaps = 7/133 (5%)

Query: 346 LEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQC 404
            + L +  N      ++    F    +L+V+D  R +  ++       L +L TL L   
Sbjct: 30  TKNLDLSFNPLR---HLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN 86

Query: 405 ILGDVA--IIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSNCFKLKVIAPNVIS 461
            +  +A      L +L+ L    + +  L     G L  L+ L++++        P   S
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFS 146

Query: 462 SLIRLEELYMSNC 474
           +L  LE L +S+ 
Sbjct: 147 NLTNLEHLDLSSN 159

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 59.5 bits (144), Expect = 4e-09
 Identities = 62/390 (15%), Positives = 120/390 (30%), Gaps = 57/390 (14%)

Query: 373 LKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGD---VAIIGKLKNLEILS------F 423
           L    +    +  +         L+ + L + ++ D     I    KN ++L       F
Sbjct: 84  LVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGF 143

Query: 424 SGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLI----RLEELYMSNCFVEWE 479
           S  G+  +         L+ LDL     +  ++ + +S        L  L +S    E  
Sbjct: 144 STDGLAAI---AATCRNLKELDLRES-DVDDVSGHWLSHFPDTYTSLVSLNISCLASEVS 199

Query: 480 DEGPNSETINSRLDELM-HLPRLTTLEVH--VKNDNILPEGFFARKLERFKISVGEAAFL 536
                       L+ L+   P L +L+++  V  + +      A +LE            
Sbjct: 200 FSA---------LERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTG------G 244

Query: 537 PFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKL-EGIKNVEYLCLDKLQG 595
                  D    LS  L   +  + LR L    ++       +      +  L L     
Sbjct: 245 YTAEVRPDVYSGLSVAL---SGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATV 301

Query: 596 IKNVLFELDTEGFSQLKHLHVQNNPDFMCIVD-SMERVPLHDAFPLLESLNLYNLMKLER 654
               L +L      +L+ L V +      I D  +E +        L  L ++       
Sbjct: 302 QSYDLVKL-LCQCPKLQRLWVLD-----YIEDAGLEVLAST--CKDLRELRVFPSEPFVM 353

Query: 655 ICQDRLS-------VQSFNELKTIRVEHCGQLSNIFLLSAAKCLPRLETIAVINCRNIQ- 706
                L+            +L+++ +  C Q++N  L++ A+  P +    +        
Sbjct: 354 EPNVALTEQGLVSVSMGCPKLESV-LYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAP 412

Query: 707 EIFAVGGGDVVIDHQKIEFGQLRTLCLGNL 736
           +   +   D+           LR L L  L
Sbjct: 413 DYLTLEPLDIGFGAIVEHCKDLRRLSLSGL 442

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 53.7 bits (129), Expect = 3e-07
 Identities = 28/165 (16%), Positives = 51/165 (30%), Gaps = 12/165 (7%)

Query: 321 LRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCR 380
           LR+     +    +    +      L  L +    S V  +  E+  T    LK +   R
Sbjct: 163 LRESDVDDVSGHWLSHFPDT--YTSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNR 220

Query: 381 -MQFFSLPPSIDHLLNLQTLCLDQC--------ILGDVAIIGKLKNLEILS-FSGSGIVK 430
            +    L   +     L+ L               G    +   K L  LS F  +    
Sbjct: 221 AVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAY 280

Query: 431 LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF 475
           LP      ++L  L+LS           ++    +L+ L++ +  
Sbjct: 281 LPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYI 325

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 48.0 bits (114), Expect = 2e-05
 Identities = 64/449 (14%), Positives = 128/449 (28%), Gaps = 80/449 (17%)

Query: 634  LHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTIRVEHCGQLSNIFLLSAAKCLPR 693
            +  ++  LE + L  ++  +   +  L  +SF   K + +  C   S   L + A     
Sbjct: 100  MSSSYTWLEEIRLKRMVVTDDCLE--LIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRN 157

Query: 694  LETIAVINCRNIQEIFAVGGGDVVIDHQKIEFGQLRTLCLGNLPVLRSFCREVEKNRQAQ 753
            L+ + +                  + H    +  L +L +       S           +
Sbjct: 158  LKELDLRESDVDDV------SGHWLSHFPDTYTSLVSLNI-------SCLASEVSFSALE 204

Query: 754  GLQETCYN----EISRLKDKLDTSSPLLNEKVVFPSLEALDLRQINVEKIWHDQLSAAMF 809
             L   C N    +++R       ++ L       P LE L              + + + 
Sbjct: 205  RLVTRCPNLKSLKLNRAVPLEKLATLLQR----APQLEELGTGGYT--AEVRPDVYSGLS 258

Query: 810  PCFQNLTRL-ILWICPKLKYVFSASMLRSFEHLQHLEIACC----ERLQEIISKGG---- 860
                    L  L         +  ++      L  L ++        L +++ +      
Sbjct: 259  VALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQR 318

Query: 861  --TDDQVTPNFVF------PGLTTLRLIGLPKLKSLYPGMHTSE--------WPALKVLN 904
                D +    +         L  LR+              T +         P L+ + 
Sbjct: 319  LWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV- 377

Query: 905  VLACDQVTVFA-SELFHFCK--------ISEENKLDTPARQ----SLFFLEKVFPNLEEL 951
            +  C Q+T  A   +             I E    D    +        + +   +L  L
Sbjct: 378  LYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRL 437

Query: 952  GLNG----KDIRMIWHGNFPQHLFGSLKVLRLADDHVSAAGFPLGLLERFNNLEKLRLDG 1007
             L+G    K    I            +++L +A    S  G    +L   ++L KL +  
Sbjct: 438  SLSGLLTDKVFEYI------GTYAKKMEMLSVAFAGDSDLGM-HHVLSGCDSLRKLEIRD 490

Query: 1008 CSCKEILSNDGHLDKHGGKLAQIKSLRLV 1036
            C       +   L  +  KL  ++SL + 
Sbjct: 491  CP----FGDKALL-ANASKLETMRSLWMS 514

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 32/215 (14%), Positives = 70/215 (32%), Gaps = 33/215 (15%)

Query: 319 DALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDF 378
           +       +++ +  +  +  G  CP+LE +        +              +     
Sbjct: 349 EPFVMEPNVALTEQGLVSVSMG--CPKLESV--LYFCRQMTNAALITIARNRPNMTRFRL 404

Query: 379 CRMQFFSLPP--------SIDHLL----NLQTLCLDQCI--LGDVAIIGKLKNLEILSFS 424
           C ++  +               ++    +L+ L L   +       I    K +E+LS +
Sbjct: 405 CIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVA 464

Query: 425 GSGI--VKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEG 482
            +G   + +   L     LR L++ +C           S L  +  L+MS+C V      
Sbjct: 465 FAGDSDLGMHHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSV------ 518

Query: 483 PNSETINSRLDELMHLPRLTTLEVHVKNDNILPEG 517
               +  +       +P+   L V V ++   P+ 
Sbjct: 519 ----SFGACKLLGQKMPK---LNVEVIDERGAPDS 546

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 26/145 (17%), Positives = 47/145 (32%), Gaps = 16/145 (11%)

Query: 328 SIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKF---FTGMKKLKVVDFCR-MQF 383
           ++    +  LL+    PQLE L      + V  +V        +G K+L+ +        
Sbjct: 221 AVPLEKLATLLQR--APQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVP 278

Query: 384 FSLPPSIDHLLNLQTLCLDQCILGD---VAIIGKLKNLEILS----FSGSGIVKLPEELG 436
             LP        L TL L    +     V ++ +   L+ L        +G+  L     
Sbjct: 279 AYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVL---AS 335

Query: 437 QLTKLRHLDLSNCFKLKVIAPNVIS 461
               LR L +       +     ++
Sbjct: 336 TCKDLRELRVFPSEPFVMEPNVALT 360

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 57.5 bits (140), Expect = 9e-09
 Identities = 27/97 (27%), Positives = 41/97 (42%), Gaps = 11/97 (11%)

Query: 384 FSLPPSIDHLLNLQTLCLDQC--ILGDV-AIIGKLKNLEILSFSG---SGIVKLPEELGQ 437
           + +P S+ +L  L  L +     ++G +   I KL  L  L  +    SG +  P+ L Q
Sbjct: 66  YPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAI--PDFLSQ 123

Query: 438 LTKLRHLDLSNCFKLK-VIAPNVISSLIRLEELYMSN 473
           +  L  LD S    L   + P  ISSL  L  +    
Sbjct: 124 IKTLVTLDFSYN-ALSGTL-PPSISSLPNLVGITFDG 158

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 50.2 bits (121), Expect = 2e-06
 Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 6/68 (8%)

Query: 385 SLPPSIDHLLNLQTLCLDQCIL-GDVAIIGKLKNLEILSFSG---SGIVKLPEELGQLTK 440
                     N Q + L +  L  D+  +G  KNL  L        G   LP+ L QL  
Sbjct: 212 DASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYG--TLPQGLTQLKF 269

Query: 441 LRHLDLSN 448
           L  L++S 
Sbjct: 270 LHSLNVSF 277

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 49.8 bits (120), Expect = 3e-06
 Identities = 33/144 (22%), Positives = 59/144 (40%), Gaps = 27/144 (18%)

Query: 343 CPQLEFLYMDSN---GSSVEINVPEKFFTGMKKLKVVDFCRMQFF-SLPPSIDHLLNLQT 398
            P L  +  D N   G+     +P+ + +  K    +   R +    +PP+  + LNL  
Sbjct: 148 LPNLVGITFDGNRISGA-----IPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN-LNLAF 201

Query: 399 LCLDQCIL-GDV-AIIGKLKNLEIL-----SFSGSGIVKLPEELGQLTKLRHLDLS-NCF 450
           + L + +L GD   + G  KN + +     S +      L  ++G    L  LDL  N  
Sbjct: 202 VDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFD----LG-KVGLSKNLNGLDLRNN-- 254

Query: 451 KLK-VIAPNVISSLIRLEELYMSN 473
           ++   + P  ++ L  L  L +S 
Sbjct: 255 RIYGTL-PQGLTQLKFLHSLNVSF 277

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 44.8 bits (107), Expect = 1e-04
 Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 3/65 (4%)

Query: 412 IGKLKNLEILSFSG---SGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEE 468
             +   +  L  SG        +P  L  L  L  L +     L    P  I+ L +L  
Sbjct: 46  DTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHY 105

Query: 469 LYMSN 473
           LY+++
Sbjct: 106 LYITH 110

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 55.5 bits (134), Expect = 1e-08
 Identities = 27/120 (22%), Positives = 50/120 (41%), Gaps = 15/120 (12%)

Query: 386 LPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLD 445
           +  ++  L   + L L    +  ++ +  ++NL ILS   + I K+         L  L 
Sbjct: 40  MDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELW 99

Query: 446 LSNCFKLKVIAPNVISSLIRLEELYMSNCFV-EWEDEGPNSETINSRLDELMHLPRLTTL 504
           +S   ++  ++   I  L+ L  LYMSN  +  W +           +D+L  L +L  L
Sbjct: 100 ISYN-QIASLSG--IEKLVNLRVLYMSNNKITNWGE-----------IDKLAALDKLEDL 145

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 42.4 bits (100), Expect = 3e-04
 Identities = 21/107 (19%), Positives = 41/107 (38%), Gaps = 14/107 (13%)

Query: 411 IIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELY 470
           +  + + +E L      I K+   L  L   +HL LS    ++ I+   +S +  L  L 
Sbjct: 21  VATEAEKVE-LHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKISS--LSGMENLRILS 76

Query: 471 MS-NCFVEWEDEGPNSETIN---------SRLDELMHLPRLTTLEVH 507
           +  N   + E+    ++T+          + L  +  L  L  L + 
Sbjct: 77  LGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYMS 123

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 56.5 bits (137), Expect = 1e-08
 Identities = 36/133 (27%), Positives = 60/133 (45%), Gaps = 8/133 (6%)

Query: 345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQ 403
           +L  LY++ N       +P   F  +K L+ +     +  +LP  + D L+NL  L LD+
Sbjct: 62  KLRLLYLNDNKLQ---TLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDR 118

Query: 404 CILGDV--AIIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSNCFKLKVIAPNVI 460
             L  +   +   L  L  LS   + +  LP+ +  +LT L+ L L N  +LK +     
Sbjct: 119 NQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNN-QLKRVPEGAF 177

Query: 461 SSLIRLEELYMSN 473
             L  L+ L + N
Sbjct: 178 DKLTELKTLKLDN 190

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 53.5 bits (129), Expect = 2e-08
 Identities = 35/133 (26%), Positives = 51/133 (38%), Gaps = 13/133 (9%)

Query: 375 VVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEE 434
           V+D  R     L    D    L+ L      L  +A + KL  L+ L  S + +    E 
Sbjct: 23  VLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEV 82

Query: 435 LGQ-LTKLRHLDLSNCF--KLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSR 491
           L +    L HL+LS      L  I P  +  L  L+ L + NC          +   + R
Sbjct: 83  LAEKCPNLTHLNLSGNKIKDLSTIEP--LKKLENLKSLDLFNC--------EVTNLNDYR 132

Query: 492 LDELMHLPRLTTL 504
            +    LP+LT L
Sbjct: 133 ENVFKLLPQLTYL 145

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 52.4 bits (126), Expect = 7e-08
 Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 14/144 (9%)

Query: 364 EKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSF 423
            +    +++L V+D C+     +       +NL+ L L    L  V+ + KL  L+ L  
Sbjct: 20  NRTPAAVREL-VLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLEL 78

Query: 424 SGSGIVKLPEELGQ-LTKLRHLDLSNCF--KLKVIAPNVISSLIRLEELYMSNCFVEWED 480
           S + I    + L + L  L HL+LS      +  + P  +  L  L+ L + NC      
Sbjct: 79  SENRIFGGLDMLAEKLPNLTHLNLSGNKLKDISTLEP--LKKLECLKSLDLFNC------ 130

Query: 481 EGPNSETINSRLDELMHLPRLTTL 504
               +   + R      LP+LT L
Sbjct: 131 --EVTNLNDYRESVFKLLPQLTYL 152

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 55.4 bits (133), Expect = 9e-08
 Identities = 27/170 (15%), Positives = 54/170 (31%), Gaps = 16/170 (9%)

Query: 342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCL 401
               LE++  D+N  +    +PE        L+V+     Q   LP   +   +L+ L +
Sbjct: 138 LPALLEYINADNNQLT---MLPEL----PTSLEVLSVRNNQLTFLPELPE---SLEALDV 187

Query: 402 DQCILGDV-AIIGKLKNLE----ILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA 456
              +L  + A+  +  + E          + I  +PE +  L     + L +   L    
Sbjct: 188 STNLLESLPAVPVRNHHSEETEIFFRCRENRITHIPENILSLDPTCTIILEDN-PLSSRI 246

Query: 457 PNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEV 506
              +S      + +    +    D   N+             P     +V
Sbjct: 247 RESLSQQTAQPDYHGPRIYFSMSDGQQNTLHRPLADAVTAWFPENKQSDV 296

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 43.4 bits (102), Expect = 5e-04
 Identities = 26/155 (16%), Positives = 51/155 (32%), Gaps = 30/155 (19%)

Query: 341 LECPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFC---RMQFFSLPPSIDHLLNL 396
           +  P      +  N     I      +F+   K +        R +  SL      +   
Sbjct: 3   IMLPINNNFSLSQNSFYNTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKEC-LINQF 61

Query: 397 QTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKL-------------- 441
             L L++  L  +   +     + +L  + + ++ LPE    L  L              
Sbjct: 62  SELQLNRLNLSSLPDNLPP--QITVLEITQNALISLPELPASLEYLDACDNRLSTLPELP 119

Query: 442 ---RHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
              +HLD+ N  +L ++ P + +    LE +   N
Sbjct: 120 ASLKHLDVDNN-QLTML-PELPAL---LEYINADN 149

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 54.5 bits (131), Expect = 2e-07
 Identities = 48/330 (14%), Positives = 98/330 (29%), Gaps = 34/330 (10%)

Query: 382 QFFSLPPS-IDHLLNLQTLCLDQCILG--DVAIIGKLKNLEILSFSGSGIVKLPEELGQL 438
               L    I  L  L+ L L    +   D  +    ++LE L  S + +  +      +
Sbjct: 63  SISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNIS--CCPM 120

Query: 439 TKLRHLDLSNCFKLKVIAPN-VISSLIRLEELYMSN-----------CFVEWEDEGPNSE 486
             LRHLDLS      V+       +L +L  L +S              +       +  
Sbjct: 121 ASLRHLDLSFN-DFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLV 179

Query: 487 TINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDAC 546
           + + +  E   L    T  +H+              +    +   + + +     +    
Sbjct: 180 SYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVN-MSVNALGHLQLSNIKLNDENCQRL 238

Query: 547 FRLSWPLFMINDSETLRTLKLKLNSTTISSK-KLEGIKNVEYLCLDKLQGIKNVLFELDT 605
                 L        +    ++          +    + VEYL +  L   + +  E  T
Sbjct: 239 MTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFT 298

Query: 606 EGFSQLKHLHVQN--NPDFMCIVDSMERVPLHDAFPLLESLNLY--NLMKLERICQDRLS 661
              + LK L +++  N  F+   +++     +  F  +    L   +   +  +C    S
Sbjct: 299 YSETALKSLMIEHVKNQVFLFSKEAL-----YSVFAEMNIKMLSISDTPFIHMVCPPSPS 353

Query: 662 VQ-----SFNELKTIRVEHCGQLSNIFLLS 686
                  + N       + C  L  +  L 
Sbjct: 354 SFTFLNFTQNVFTDSVFQGCSTLKRLQTLI 383

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 49.9 bits (119), Expect = 5e-06
 Identities = 21/159 (13%), Positives = 54/159 (33%), Gaps = 32/159 (20%)

Query: 343 CPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD 402
                FL    N  +   +   +  + +K+L+ +   R    +         N+ +L   
Sbjct: 352 PSSFTFLNFTQNVFT---DSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETL 408

Query: 403 QCILGD---------VAIIGKLK-------------------NLEILSFSGSGIVKLPEE 434
              L            A    +                     +++L    + I+ +P++
Sbjct: 409 DVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKD 468

Query: 435 LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
           +  L  L+ L++++  +LK +   V   L  L+ +++ +
Sbjct: 469 VTHLQALQELNVASN-QLKSVPDGVFDRLTSLQYIWLHD 506

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 44.9 bits (106), Expect = 2e-04
 Identities = 37/307 (12%), Positives = 86/307 (28%), Gaps = 63/307 (20%)

Query: 327 ISIRDSSIHELLEGLECPQLEFLYMDSN--GSSVEINVPEKFFTGMKKLKVVDFCRMQFF 384
           I        +L +      +E+L + +      ++        T +K L +       F 
Sbjct: 259 IETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFL 318

Query: 385 SLPPSI-DHLLNLQTLCLD--QCILGDVAIIGKLKNLEILSFSGSGIVKLPEE-LGQLTK 440
               ++      +    L         +       +   L+F+ +       +    L +
Sbjct: 319 FSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKR 378

Query: 441 LRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPR 500
           L+ L L     LK     V      +  L   +  +   +            D       
Sbjct: 379 LQTLILQRN-GLKNF-FKVALMTKNMSSLETLDVSLNSLNSHAY--------DRTCAWAE 428

Query: 501 -LTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDS 559
            +  L +     N+L    F                LP                      
Sbjct: 429 SILVLNLS---SNMLTGSVFRC--------------LP---------------------- 449

Query: 560 ETLRTLKLKLNSTTISSKKLEGIKNVEYLCLD--KLQGIKNVLFELDTEGFSQLKHLHVQ 617
             ++ L L  N      K +  ++ ++ L +   +L+ + + +F+      + L+++ + 
Sbjct: 450 PKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFD----RLTSLQYIWLH 505

Query: 618 NNPDFMC 624
           +NP + C
Sbjct: 506 DNP-WDC 511

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 53.0 bits (127), Expect = 5e-07
 Identities = 24/143 (16%), Positives = 47/143 (32%), Gaps = 19/143 (13%)

Query: 371 KKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVK 430
               V++       +LP  +    ++ TL +    L   ++      L  L  SG+ +  
Sbjct: 40  NGNAVLNVGESGLTTLPDCL--PAHITTLVIPDNNL--TSLPALPPELRTLEVSGNQLTS 95

Query: 431 LPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIR-LEELYMS-NCFVEWEDEGPNSETI 488
           LP     L +L                  + +L   L +L++  N         P  + +
Sbjct: 96  LPVLPPGLLELSIFSNPL---------THLPALPSGLCKLWIFGNQLTSLPVLPPGLQEL 146

Query: 489 NSRLDELMHLP----RLTTLEVH 507
           +   ++L  LP     L  L  +
Sbjct: 147 SVSDNQLASLPALPSELCKLWAY 169

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 30/205 (14%), Positives = 56/205 (27%), Gaps = 32/205 (15%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
            +L  L+  +N  +   ++P         LK +     +  SLP        L+ L +  
Sbjct: 201 SELYKLWAYNNRLT---SLPA----LPSGLKELIVSGNRLTSLPVLPS---ELKELMVSG 250

Query: 404 CILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISS 462
             L  +  +      L  LS   + + +LPE L  L+    ++L     L       +  
Sbjct: 251 NRLTSLPMLPS---GLLSLSVYRNQLTRLPESLIHLSSETTVNLEGN-PLSERTLQALRE 306

Query: 463 LIRLEELYMSNCFVEWEDEG-----------------PNSETINSRLDELMHLPRLTTLE 505
           +             +                      P  E   +  D      +    +
Sbjct: 307 ITSAPGYSGPIIRFDMAGASAPRETRALHLAAADWLVPAREGEPAPADRWHMFGQEDNAD 366

Query: 506 VHVKNDNILPEGFFARKLERFKISV 530
                 + L E     K   FK  +
Sbjct: 367 AFSLFLDRLSETENFIKDAGFKAQI 391

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 48.0 bits (114), Expect = 2e-05
 Identities = 60/386 (15%), Positives = 119/386 (30%), Gaps = 46/386 (11%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ 403
             L  L++  N    ++        G+++L        Q  SLP     L  L       
Sbjct: 121 SGLCKLWIFGN----QLTSLPVLPPGLQEL---SVSDNQLASLPALPSELCKLWAYNNQL 173

Query: 404 CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL 463
             L           L+ LS S + +  LP    +L KL   +     +L  + P + S  
Sbjct: 174 TSLPM-----LPSGLQELSVSDNQLASLPTLPSELYKLWAYNN----RLTSL-PALPSG- 222

Query: 464 IRLEELYMSNCFVEWEDEGPNSETI----NSRLDEL-MHLPRLTTLEVHVKNDNI--LPE 516
             L+EL +S   +      P+         +RL  L M    L +L V+   + +  LPE
Sbjct: 223 --LKELIVSGNRLTSLPVLPSELKELMVSGNRLTSLPMLPSGLLSLSVY--RNQLTRLPE 278

Query: 517 GFFA-RKLERFKISVGEAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTIS 575
                       +     +     A              +  D       +        +
Sbjct: 279 SLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFDMAGASAPRETRALHLAA 338

Query: 576 SKKLEGIKNVEYLCLDKLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVP-- 633
           +  L   +  E    D+         E + + FS      +    +F+       ++   
Sbjct: 339 ADWLVPAREGEPAPADRWHMFGQ---EDNADAFSLFLD-RLSETENFIKDAGFKAQISSW 394

Query: 634 ---LHDAFPLLESLNLYNLMKLERICQDRLSVQSFNELKTI----RVEHCGQLSNI-FLL 685
              L +   L  +            C+DR++    +++K +      E     +++  L+
Sbjct: 395 LAQLAEDEALRANTFAMATEATSS-CEDRVTF-FLHQMKNVQLVHNAEKGQYDNDLAALV 452

Query: 686 SAAKCLPRLETIAVINCRNIQEIFAV 711
           +  + + RL  +  I    ++ +  V
Sbjct: 453 ATGREMFRLGKLEQIAREKVRTLALV 478

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 51.2 bits (123), Expect = 5e-07
 Identities = 24/172 (13%), Positives = 44/172 (25%), Gaps = 22/172 (12%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP--SIDHLLNLQTLCL 401
            ++  + + +  +   I         +  LK +          P    +        L +
Sbjct: 80  SKVTHIEIRNTRNLTYI--DPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEI 137

Query: 402 DQ----CILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAP 457
                   +   A  G       L    +G   +       TKL  + L+    L VI  
Sbjct: 138 TDNPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDK 197

Query: 458 NVISSLIR-LEELYMSNCFVEWEDEGPNS-ETINSRLDELMHLPRLTTLEVH 507
           +    +      L +S            S   + S+   L HL  L      
Sbjct: 198 DAFGGVYSGPSLLDVSQ----------TSVTALPSKG--LEHLKELIARNTW 237

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 48.1 bits (115), Expect = 6e-06
 Identities = 42/262 (16%), Positives = 79/262 (30%), Gaps = 71/262 (27%)

Query: 373 LKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKL 431
            + +        ++P  +  +L N+  + +             L+ LE  SF        
Sbjct: 33  TQTLKLIETHLRTIPSHAFSNLPNISRIYVSID--------VTLQQLESHSFYN------ 78

Query: 432 PEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSR 491
                 L+K+ H+++ N   L  I P+ +  L  L+ L + N              +   
Sbjct: 79  ------LSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFN----------TGLKMFPD 122

Query: 492 LDELMHLPRLTTLEVHVKNDNI--LPEGFFAR--------KLERFKISVGEAAFLPFGAT 541
           L ++        LE+   N  +  +P   F          KL     +      +   A 
Sbjct: 123 LTKVYSTDIFFILEIT-DNPYMTSIPVNAFQGLCNETLTLKLYNNGFTS-----VQGYA- 175

Query: 542 SNDACFRLSWPLFMINDSETLRTLKLKLNS--TTISSKKLEGIKNV-EYLCLDKLQGIKN 598
                F  +           L  + L  N   T I      G+ +    L +      + 
Sbjct: 176 -----FNGT----------KLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVS-----QT 215

Query: 599 VLFELDTEGFSQLKHLHVQNNP 620
            +  L ++G   LK L  +N  
Sbjct: 216 SVTALPSKGLEHLKELIARNTW 237

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 51.2 bits (123), Expect = 6e-07
 Identities = 35/131 (26%), Positives = 57/131 (43%), Gaps = 8/131 (6%)

Query: 347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQCI 405
           E L + S G +    + +  F G+ KL  ++    Q  +L   + D L  L TL L    
Sbjct: 38  EKLDLQSTGLA---TLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQ 94

Query: 406 LGDV--AIIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSNCFKLKVIAPNVISS 462
           L  +   +   L  L+ L   G+ +  LP  +  +LTKL+ L L+   +L+ I       
Sbjct: 95  LASLPLGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTN-QLQSIPAGAFDK 153

Query: 463 LIRLEELYMSN 473
           L  L+ L +S 
Sbjct: 154 LTNLQTLSLST 164

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 50.1 bits (119), Expect = 2e-06
 Identities = 23/113 (20%), Positives = 42/113 (37%), Gaps = 12/113 (10%)

Query: 376 VDFCRMQFFSLPPSIDHLLNLQTLCLD-QCILGDV--AIIGKLKNLEILSFSGSGIVKLP 432
           +   R         +    NL  L ++ Q  L  +    +  L  L  L+   SG+  + 
Sbjct: 13  LRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVA 72

Query: 433 EE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN------CFVEW 478
            +      +L  L+LS    L+ ++   +  L  L+EL +S       C + W
Sbjct: 73  PDAFHFTPRLSRLNLSFN-ALESLSWKTVQGL-SLQELVLSGNPLHCSCALRW 123

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 44.7 bits (105), Expect = 1e-04
 Identities = 15/96 (15%), Positives = 26/96 (27%), Gaps = 11/96 (11%)

Query: 424 SGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGP 483
           +  G +     L     L  L + N   L+ +    +  L  L  L +    +       
Sbjct: 16  TRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGL------- 68

Query: 484 NSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFF 519
               +    D     PRL+ L +       L     
Sbjct: 69  --RFVAP--DAFHFTPRLSRLNLSFNALESLSWKTV 100

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 49.5 bits (118), Expect = 4e-06
 Identities = 25/114 (21%), Positives = 36/114 (31%), Gaps = 27/114 (23%)

Query: 362 VPEKFFTGMKKLKVVDFCRMQFFSLPPSID--HLLNLQTLCLDQCILGDVAIIGKLKNLE 419
           VP+   +    L   D        L        L NL +L L             L  + 
Sbjct: 33  VPQSLPSYTALL---DLSHNNLSRLRAEWTPTRLTNLHSLLLSHN---------HLNFIS 80

Query: 420 ILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
             +F              +  LR+LDLS+   L  +   + S L  LE L + N
Sbjct: 81  SEAFVP------------VPNLRYLDLSSN-HLHTLDEFLFSDLQALEVLLLYN 121

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 48.7 bits (116), Expect = 8e-06
 Identities = 25/130 (19%), Positives = 46/130 (35%), Gaps = 25/130 (19%)

Query: 343 CPQLEFLYMDSNGSSVEI-NVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLC 400
            P L +L + SN     +  + E  F+ ++ L+V+         +  +  + +  LQ L 
Sbjct: 87  VPNLRYLDLSSN----HLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLY 142

Query: 401 LDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVI 460
           L Q          ++    +                +L KL  LDLS+  KLK +    +
Sbjct: 143 LSQN---------QISRFPVELIKD---------GNKLPKLMLLDLSSN-KLKKLPLTDL 183

Query: 461 SSLIRLEELY 470
             L    +  
Sbjct: 184 QKLPAWVKNG 193

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 47.3 bits (113), Expect = 4e-06
 Identities = 24/117 (20%), Positives = 45/117 (38%), Gaps = 13/117 (11%)

Query: 391 DHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNC 449
             L     +      +  +     L+ L+ L  + + I ++ E L Q L  L  L L+N 
Sbjct: 39  ATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN 98

Query: 450 F--KLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTL 504
              +L  + P  ++SL  L  L +           P +   + RL  +  +P++  L
Sbjct: 99  SLVELGDLDP--LASLKSLTYLCILRN--------PVTNKKHYRLYVIYKVPQVRVL 145

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 41.6 bits (98), Expect = 5e-04
 Identities = 22/118 (18%), Positives = 43/118 (36%), Gaps = 15/118 (12%)

Query: 338 LEGL--ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLL- 394
           +E L     Q + +    N        P      +++LK +     +   +   +D  L 
Sbjct: 34  IENLGATLDQFDAIDFSDNEIRKLDGFP-----LLRRLKTLLVNNNRICRIGEGLDQALP 88

Query: 395 NLQTLCLDQC---ILGDVAIIGKLKNLEILSFSGSGIVKLPE----ELGQLTKLRHLD 445
           +L  L L       LGD+  +  LK+L  L    + +          + ++ ++R LD
Sbjct: 89  DLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLD 146

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 48.1 bits (115), Expect = 5e-06
 Identities = 31/129 (24%), Positives = 59/129 (45%), Gaps = 8/129 (6%)

Query: 349 LYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQCILG 407
           + ++ N   V   +P   F+  KKL+ +D    Q   L P     L +L +L L    + 
Sbjct: 37  IRLEQNTIKV---IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT 93

Query: 408 DV--AIIGKLKNLEILSFSGSGIVKLPEELGQ-LTKLRHLDLSNCFKLKVIAPNVISSLI 464
           ++  ++   L +L++L  + + I  L  +  Q L  L  L L +  KL+ IA    S L 
Sbjct: 94  ELPKSLFEGLFSLQLLLLNANKINCLRVDAFQDLHNLNLLSLYDN-KLQTIAKGTFSPLR 152

Query: 465 RLEELYMSN 473
            ++ ++++ 
Sbjct: 153 AIQTMHLAQ 161

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 41.9 bits (99), Expect = 5e-04
 Identities = 23/110 (20%), Positives = 40/110 (36%), Gaps = 15/110 (13%)

Query: 414 KLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMS 472
             K L  +  S + I +L  +    L  L  L L    K+  +  ++   L  L+ L ++
Sbjct: 54  PYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGN-KITELPKSLFEGLFSLQLLLLN 112

Query: 473 NCFVEWEDEGPNSETINS-RLDELMHLPRLTTLEVHVKNDNILPEGFFAR 521
                      N   IN  R+D    L  L  L ++      + +G F+ 
Sbjct: 113 A----------NK--INCLRVDAFQDLHNLNLLSLYDNKLQTIAKGTFSP 150

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 48.7 bits (116), Expect = 7e-06
 Identities = 34/190 (17%), Positives = 63/190 (33%), Gaps = 25/190 (13%)

Query: 331 DSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDF--CRMQFFSLPP 388
           D +   L   +    L    +        ++ P        +++ +D     ++  +L  
Sbjct: 53  DLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHG 112

Query: 389 SIDHLLNLQTLCLDQCILGDVAI--IGKLKNLEILSFSG------SGIVKLPEELGQLTK 440
            +     LQ L L+   L D  +  + K  NL  L+ SG        +  L       ++
Sbjct: 113 ILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLS---SCSR 169

Query: 441 LRHLDLSNCFKL--KVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELM-H 497
           L  L+LS CF    K +   V      + +L +S      +            L  L+  
Sbjct: 170 LDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSD---------LSTLVRR 220

Query: 498 LPRLTTLEVH 507
            P L  L++ 
Sbjct: 221 CPNLVHLDLS 230

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 48.3 bits (115), Expect = 8e-06
 Identities = 28/166 (16%), Positives = 55/166 (33%), Gaps = 20/166 (12%)

Query: 321 LRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCR 380
           L       + D  ++ L +      L  L + S  S       +   +   +L  ++   
Sbjct: 125 LEGL---RLSDPIVNTLAK---NSNLVRLNL-SGCSGFSEFALQTLLSSCSRLDELNLSW 177

Query: 381 MQFFSLPPSIDHLL-----NLQTLCLDQC--ILGDV---AIIGKLKNLEILSFSGSGIV- 429
              F+    +   +      +  L L      L       ++ +  NL  L  S S ++ 
Sbjct: 178 CFDFT-EKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLK 236

Query: 430 -KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC 474
               +E  QL  L+HL LS C+ +       +  +  L+ L +   
Sbjct: 237 NDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI 282

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 46.0 bits (109), Expect = 2e-05
 Identities = 14/147 (9%), Positives = 40/147 (27%), Gaps = 18/147 (12%)

Query: 369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGD--VAIIGKLKNLEILSFSG- 425
            M +       +  +  LP        +Q +      +       +  L+ +E +     
Sbjct: 36  AMVRYHGQQRWQKDYNHLPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKC 95

Query: 426 -----SGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWED 480
                  + +L +       +  +++ +C  +       +     L+ L++S+       
Sbjct: 96  HYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDL------ 149

Query: 481 EGPNSETINSRLDELMHLPRLTTLEVH 507
                               L +LE+ 
Sbjct: 150 ----PGVKEKEKIVQAFKTSLPSLELK 172

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 44.3 bits (105), Expect = 9e-05
 Identities = 33/130 (25%), Positives = 52/130 (40%), Gaps = 7/130 (5%)

Query: 347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQCI 405
           + LY+  N  +    +    F  +  LK +     Q  +LP  + D L  L  L L    
Sbjct: 43  QILYLHDNQIT---KLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQ 99

Query: 406 LGD--VAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL 463
           L     A+  +L +L+ L    + + +LP  + +LT L HL L    +LK I       L
Sbjct: 100 LTVLPSAVFDRLVHLKELFMCCNKLTELPRGIERLTHLTHLALDQN-QLKSIPHGAFDRL 158

Query: 464 IRLEELYMSN 473
             L   Y+  
Sbjct: 159 SSLTHAYLFG 168

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 44.1 bits (104), Expect = 2e-04
 Identities = 32/181 (17%), Positives = 58/181 (32%), Gaps = 20/181 (11%)

Query: 344 PQLEFLYMDSNGSSVEINVPEKFFTGMKK-LKVVDFCRMQFFSLP-PSIDHLLNLQTLCL 401
           P L  L + +   +       +    +K  LKV+   +    +     +     L TL L
Sbjct: 121 PDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDL 180

Query: 402 -DQCILGDVAII-----GKLKNLEILSFSGSGIVKLPEE----LGQLTKLRHLDLSNCFK 451
            D   LG+  +I      K   L++L+   +G+               +L+ LDLS+   
Sbjct: 181 SDNPELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSL 240

Query: 452 LKVIAPNVISSLIRLEELYMS-NCFVEWEDEGPNS-ETIN------SRLDELMHLPRLTT 503
                        +L  L +S     +     P     ++       R      LP++  
Sbjct: 241 RDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLPAKLSVLDLSYNRLDRNPSPDELPQVGN 300

Query: 504 L 504
           L
Sbjct: 301 L 301

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 43.3 bits (102), Expect = 3e-04
 Identities = 23/120 (19%), Positives = 42/120 (35%), Gaps = 4/120 (3%)

Query: 331 DSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI 390
           +  +   L  L+ P L+ L + + G      V         +L+ +D           + 
Sbjct: 188 ERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAP 247

Query: 391 --DHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN 448
             D    L +L L    L  V   G    L +L  S + + + P    +L ++ +L L  
Sbjct: 248 SCDWPSQLNSLNLSFTGLKQV-PKGLPAKLSVLDLSYNRLDRNPSPD-ELPQVGNLSLKG 305

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 43.1 bits (102), Expect = 3e-04
 Identities = 32/108 (29%), Positives = 47/108 (43%), Gaps = 7/108 (6%)

Query: 345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSI-DHLLNLQTLCLDQ 403
            L +L +  N      ++P   F  +  LK +     Q  SLP  + D L NL  L L  
Sbjct: 86  NLTYLILTGNQLQ---SLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAH 142

Query: 404 CILGDV--AIIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDLSN 448
             L  +   +  KL NL  L  S + +  LPE +  +LT+L+ L L  
Sbjct: 143 NQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQ 190

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 25/108 (23%), Positives = 48/108 (44%), Gaps = 3/108 (2%)

Query: 367 FTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGS 426
              +  +  +        S+   I +L N++ L L    L D++ + +L NL  L  +G+
Sbjct: 37  QNELNSIDQIIANNSDIKSVQG-IQYLPNVRYLALGGNKLHDISALKELTNLTYLILTGN 95

Query: 427 GIVKLPEEL-GQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
            +  LP  +  +LT L+ L L    +L+ +   V   L  L  L +++
Sbjct: 96  QLQSLPNGVFDKLTNLKELVLVEN-QLQSLPDGVFDKLTNLTYLNLAH 142

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 42.6 bits (99), Expect = 6e-04
 Identities = 19/132 (14%), Positives = 43/132 (32%), Gaps = 19/132 (14%)

Query: 338 LEGLECPQLEFLYMDSNGSSVEI--NVPEKFFTGMKKLKVVDFCRMQFFSLPPSI----- 390
           +     P L+ L + S G    +  ++       ++KL +        F    ++     
Sbjct: 187 IGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVFRPLF 246

Query: 391 --DHLLNLQTLCLDQCILGD-----VAIIGKLKNLEILSFSG-----SGIVKLPEELGQL 438
             D   NL+ L +      +           L  LE +  S       G   L + + ++
Sbjct: 247 SKDRFPNLKWLGIVDAEEQNVVVEMFLESDILPQLETMDISAGVLTDEGARLLLDHVDKI 306

Query: 439 TKLRHLDLSNCF 450
             L+ +++   +
Sbjct: 307 KHLKFINMKYNY 318

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

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	1247
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-27
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	6e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	2e-06
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	3e-05
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.002
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.003
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	5e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	9e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	2e-04
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	4e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	6e-04
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	7e-04
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	0.001
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	0.001

>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 =  111 bits (278), Expect = 1e-27
 Identities = 31/229 (13%), Positives = 71/229 (31%), Gaps = 28/229 (12%)

Query: 1   MGGIGKTTLVKEVARKARK--DKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETES 58
             G GK+ +  +   K+ +     +D +V+ + S T             L L  +++  +
Sbjct: 52  RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLN 111

Query: 59  -----------SRASRLHEQLKREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTA 107
                       +    +  + R    L + D++ +   +              + L+T 
Sbjct: 112 FPSVEHVTSVVLKRMICNALIDRP-NTLFVFDDVVQEETIRW------AQELRLRCLVTT 164

Query: 108 RDRTVLFSMGSEKNFL-VDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIA 166
           RD  +  +      F+ V  L+ +E +   +          + +    +  +   G P  
Sbjct: 165 RDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPAT 224

Query: 167 LTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYL 215
           L    ++   K+  +      +L    LV    +          SY  L
Sbjct: 225 LMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI-------TPYSYKSL 266

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 55.8 bits (133), Expect = 2e-08
 Identities = 28/150 (18%), Positives = 52/150 (34%), Gaps = 7/150 (4%)

Query: 299 CRDQNALVVRNEEVWEWPDEDALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSV 358
             +   L + N ++        L K   + +  + I  +        L  L ++ N    
Sbjct: 240 LTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNEN---- 295

Query: 359 EINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNL 418
                    + +K L  +         + P +  L  LQ L      + DV+ +  L N+
Sbjct: 296 -QLEDISPISNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFANNKVSDVSSLANLTNI 353

Query: 419 EILSFSGSGIVKLPEELGQLTKLRHLDLSN 448
             LS   + I  L   L  LT++  L L++
Sbjct: 354 NWLSAGHNQISDLT-PLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 41.1 bits (95), Expect = 6e-04
 Identities = 16/64 (25%), Positives = 29/64 (45%), Gaps = 1/64 (1%)

Query: 387 PPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDL 446
             S   L  + TL  D+  +  +  +  L NL  ++FS + +  +   L  LTKL  + +
Sbjct: 37  TVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDIT-PLKNLTKLVDILM 95

Query: 447 SNCF 450
           +N  
Sbjct: 96  NNNQ 99

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.2 bits (115), Expect = 2e-06
 Identities = 14/97 (14%), Positives = 38/97 (39%), Gaps = 12/97 (12%)

Query: 394 LNLQTLCLDQCILGD---VAIIGKLKNLEILSFSGSGI-----VKLPEELGQLTKLRHLD 445
           L++Q+L +    L D     ++  L+  +++     G+       +   L     L  L+
Sbjct: 2   LDIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELN 61

Query: 446 LSNC----FKLKVIAPNVISSLIRLEELYMSNCFVEW 478
           L +       +  +   + +   ++++L + NC +  
Sbjct: 62  LRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTG 98

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 44.6 bits (104), Expect = 3e-05
 Identities = 15/70 (21%), Positives = 27/70 (38%), Gaps = 1/70 (1%)

Query: 379 CRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQL 438
                 S    + +L  L TL  D   + D++ +  L NL  +    + I  +   L   
Sbjct: 158 IGNAQVSDLTPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVSP-LANT 216

Query: 439 TKLRHLDLSN 448
           + L  + L+N
Sbjct: 217 SNLFIVTLTN 226

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 39.2 bits (90), Expect = 0.002
 Identities = 12/62 (19%), Positives = 26/62 (41%), Gaps = 4/62 (6%)

Query: 412 IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYM 471
           +  L  L  L    + I  +   L  L  L  + L N  ++  ++P  +++   L  + +
Sbjct: 169 LANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNN-QISDVSP--LANTSNLFIVTL 224

Query: 472 SN 473
           +N
Sbjct: 225 TN 226

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.1 bits (87), Expect = 0.003
 Identities = 12/59 (20%), Positives = 24/59 (40%), Gaps = 1/59 (1%)

Query: 366 FFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFS 424
               + KL  +     +   + P +  L NL  + L    + DV+ +    NL I++ +
Sbjct: 168 PLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLT 225

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (102), Expect = 5e-05
 Identities = 28/213 (13%), Positives = 60/213 (28%), Gaps = 9/213 (4%)

Query: 412 IGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYM 471
           + K+ +   ++     +  LP +L        L LS    L   +   +    RL +L +
Sbjct: 6   VSKVASHLEVNCDKRNLTALPPDLP--KDTTILHLSEN-LLYTFSLATLMPYTRLTQLNL 62

Query: 472 SNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVG 531
                E      +         +L H    +   +      +        +L    +   
Sbjct: 63  DRA--ELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGAL 120

Query: 532 EAAFLPFGATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLD 591
                           +   P  +    +  +      N T + +  L G++N++ L L 
Sbjct: 121 RGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQ 180

Query: 592 KLQGIKNVLFELDTEGFSQLKHLHVQNNPDFMC 624
           +              G   L    +  NP ++C
Sbjct: 181 ENSLYT---IPKGFFGSHLLPFAFLHGNP-WLC 209

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 44.0 bits (102), Expect = 9e-05
 Identities = 13/82 (15%), Positives = 27/82 (32%), Gaps = 5/82 (6%)

Query: 361 NVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEI 420
           N           L+ ++    +   LP        L+ L      L +  +    +NL+ 
Sbjct: 274 NEIRSLCDLPPSLEELNVSNNKLIELPALPP---RLERLIASFNHLAE--VPELPQNLKQ 328

Query: 421 LSFSGSGIVKLPEELGQLTKLR 442
           L    + + + P+    +  LR
Sbjct: 329 LHVEYNPLREFPDIPESVEDLR 350

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 43.3 bits (100), Expect = 1e-04
 Identities = 18/96 (18%), Positives = 38/96 (39%), Gaps = 10/96 (10%)

Query: 378 FCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ 437
           +       +    D   +L+ L +    L  + +      LE L  S + + ++PE    
Sbjct: 268 YLNASSNEIRSLCDLPPSLEELNVSNNKL--IELPALPPRLERLIASFNHLAEVPELPQ- 324

Query: 438 LTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSN 473
              L+ L +     L+   P++  S   +E+L M++
Sbjct: 325 --NLKQLHVEYN-PLREF-PDIPES---VEDLRMNS 353

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.8 bits (99), Expect = 2e-04
 Identities = 16/82 (19%), Positives = 30/82 (36%), Gaps = 2/82 (2%)

Query: 416 KNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCF 475
           + +       S + +   E     +++H+DLSN          ++S   +L+ L +    
Sbjct: 23  QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGL- 81

Query: 476 VEWEDEGPNSETINSRLDELMH 497
               D   N+   NS L  L  
Sbjct: 82  -RLSDPIVNTLAKNSNLVRLNL 102

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]} Length = 162

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.2 bits (93), Expect = 4e-04
 Identities = 18/116 (15%), Positives = 37/116 (31%), Gaps = 1/116 (0%)

Query: 385 SLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHL 444
            L   +    +     LD   L     +       +L+   S    L      + +L  L
Sbjct: 11  QLKLIMSKRYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSL 70

Query: 445 DLSNCFKLKVIA-PNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLP 499
           +LSN    ++    +++     L+ L +S   ++ E E    + +      L    
Sbjct: 71  NLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNS 126

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 40.8 bits (94), Expect = 6e-04
 Identities = 42/290 (14%), Positives = 89/290 (30%), Gaps = 36/290 (12%)

Query: 362 VPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCILGDV--AIIGKLKNL 418
           VP+        L   D    +   +      +L NL TL L    +  +       L  L
Sbjct: 25  VPKDLPPDTALL---DLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKL 81

Query: 419 EILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEW 478
           E L  S + + +LPE++ +  +   +  +   K++    N ++ +I +E           
Sbjct: 82  ERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGI 141

Query: 479 EDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGFFARKLERFKISVGEAAFLPF 538
           E+                 + +L+ + +   N   +P+G     L    +          
Sbjct: 142 EN------------GAFQGMKKLSYIRIADTNITTIPQGLP-PSLTELHLD--------- 179

Query: 539 GATSNDACFRLSWPLFMINDSETLRTLKLKLNSTTISSKKLEGIKNVEYLCLDKLQGIKN 598
                            +     L   KL L+  +IS+     + N  +L    L   K 
Sbjct: 180 ------GNKITKVDAASLKGLNNLA--KLGLSFNSISAVDNGSLANTPHLRELHLNNNKL 231

Query: 599 VLFELDTEGFSQLKHLHVQNNPDFMCIVDSMERVPLHDAFPLLESLNLYN 648
           V           ++ +++ NN       +       +        ++L++
Sbjct: 232 VKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS 281

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.4 bits (93), Expect = 7e-04
 Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 1/71 (1%)

Query: 378 FCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQ 437
           +      +    +  L  L TL L+   + D+  +  L  L+ L  S + I  L   L  
Sbjct: 140 YLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHISDLRA-LAG 198

Query: 438 LTKLRHLDLSN 448
           L  L  L+L +
Sbjct: 199 LKNLDVLELFS 209

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 20/122 (16%), Positives = 43/122 (35%), Gaps = 10/122 (8%)

Query: 384 FSLPPSIDHLLNLQTLCLDQC-ILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLR 442
            ++   ++ LL +  L L    +      +  L+ LE+L  S + +  +        +L+
Sbjct: 10  LTVLCHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANL-PRLQ 68

Query: 443 HLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLT 502
            L L N    +  A   + S  RL  L +              +    +      LP ++
Sbjct: 69  ELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGN--------SLCQEEGIQERLAEMLPSVS 120

Query: 503 TL 504
           ++
Sbjct: 121 SI 122

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

 Score = 39.3 bits (90), Expect = 0.001
 Identities = 14/68 (20%), Positives = 28/68 (41%), Gaps = 4/68 (5%)

Query: 411 IIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELY 470
           +  + + +E L      I K+   L  L   +HL LS    ++ I+   +S +  L  L 
Sbjct: 21  VATEAEKVE-LHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKISS--LSGMENLRILS 76

Query: 471 MSNCFVEW 478
           +    ++ 
Sbjct: 77  LGRNLIKK 84

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	1247
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.94
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.94
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.91
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.89
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.89
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.88
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.88
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.87
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.86
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.86
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.85
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.85
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.83
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.82
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.81
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.81
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.8
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.8
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.76
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.68
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.64
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.64
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.63
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.62
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.6
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.6
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.57
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.56
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.48
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.42
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.42
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.19
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.15
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.15
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	98.91
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.52
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.5
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.42
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.36
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.35
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.34
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.31
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.27
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.23
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.22
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	98.16
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.13
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.13
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.1
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.08
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.97
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.96
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.95
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	97.88
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.88
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.53
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	97.43
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.32
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.07
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	97.01
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.99
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.8
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.55
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	96.51
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.16
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.15
d1ls1a2	207	GTPase domain of the signal sequence recognition p	95.83
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	95.81
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	95.45
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.25
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.18
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.17
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	95.03
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	95.0
d1okkd2	207	GTPase domain of the signal recognition particle r	94.85
d1xpua3	289	Transcription termination factor Rho, ATPase domai	94.73
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.65
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	94.52
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	94.46
d2qy9a2	211	GTPase domain of the signal recognition particle r	94.44
d1vmaa2	213	GTPase domain of the signal recognition particle r	94.28
d1j8yf2	211	GTPase domain of the signal sequence recognition p	94.06
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	93.93
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	93.92
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.88
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.78
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	93.72
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	93.66
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	93.57
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	93.44
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	93.43
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	93.42
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	92.98
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	92.72
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	92.6
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	92.56
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	92.02
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	91.97
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	91.37
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	91.21
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	91.16
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	91.16
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	90.83
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	90.61
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	90.56
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	90.43
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	90.38
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	90.36
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	90.12
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	89.72
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	89.7
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	89.52
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	89.34
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	89.16
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	89.12
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	89.09
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	88.93
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	88.81
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	88.63
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	88.53
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	88.39
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	88.13
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	87.9
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	87.71
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	87.26
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	87.09
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	86.81
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	86.42
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	86.42
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	86.28
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	86.08
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	85.38
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	85.37
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	85.36
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	85.16
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	84.74
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	84.71
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	84.38
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	83.78
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	83.74
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	83.37
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	82.48
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	81.16
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	81.11
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	80.83
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	80.75
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	80.59
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	80.57

>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=9.3e-41  Score=238.19  Aligned_cols=213  Identities=14%  Similarity=0.120  Sum_probs=164.8

Q ss_pred             CCCCCHHHHHHHHHHHHH--HCCCCCEEEEEECCCCCCHHHHHHHHHH---HHCCCCC------CC-CHHHHHHHHHHHH
Q ss_conf             998619999999999962--2139984999990775499999999999---9398731------22-4479999999999
Q 000869            1 MGGIGKTTLVKEVARKAR--KDKLFDRVVFSEVSQTIDIKKIQQAIAE---KLGLVLQ------EE-TESSRASRLHEQL   68 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~--~~~~f~~~~w~~~~~~~~~~~~~~~i~~---~l~~~~~------~~-~~~~~~~~~~~~l   68 (1247)
                      |||+||||||++++++..  .+.+|++++|++++...+...+...+..   .++....      .. ..........+..
T Consensus        52 mgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  131 (277)
T d2a5yb3          52 RAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNAL  131 (277)
T ss_dssp             STTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHHHHHHHHHHCCHHHCCCCCCHHHHHHHHHHHHHHHH
T ss_conf             99788899999999855655401276489999368777778999999999872202202786321233699999999998


Q ss_pred             HCCCEEEEEEECCCCCCCCHHHCCCCCCCCCCCEEEEECCCHHHHHHCCC-CCEEECCCCCHHHHHHHHHHHHCCCCCCH
Q ss_conf             45991999994999942400001678889999499991598145541399-62398389998999999999809999983
Q 000869           69 KREEKILIILDNIWKRVDLETVGIPFGDDHRGCKLLLTARDRTVLFSMGS-EKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        69 ~~~~~~LlvlD~v~~~~~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~~~-~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      ..++|+|+|+||+|+.+++..+.      ..||+||||||++.++..... ...|+|++|+.+||++||..++......+
T Consensus       132 L~~kr~LlVLDDv~~~~~~~~~~------~~~srilvTTR~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~  205 (277)
T d2a5yb3         132 IDRPNTLFVFDDVVQEETIRWAQ------ELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGE  205 (277)
T ss_dssp             TTSTTEEEEEEEECCHHHHHHHH------HTTCEEEEEESBGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC--C
T ss_pred             HCCCCEEEECCHHHHHHHHHHHC------CCCCEEEEEEEHHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCH
T ss_conf             44688167525066776655520------457559999644899986378871687788997999999999847766742


Q ss_pred             HHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHC
Q ss_conf             54899999999908984699999999964991699999998539988888999845798999988088904289999851
Q 000869          148 ELKSTATEVAKACKGLPIALTTIARALRNKSMPQWKTTLQQLRMPSLVNFGGVPAEAYLTIELSYNYLEGEKLKNIFLLC  227 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~g~Plai~~~~~~l~~~~~~~w~~~l~~l~~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~~~~~~  227 (1247)
                      ...+.+.+|+++|+|+|+|+.++|+.++.++.++|.....++.....       .++..++.+||+.|+.+ +|.||.++
T Consensus       206 ~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~-------~~v~~il~~sY~~L~~~-lk~c~~~l  277 (277)
T d2a5yb3         206 KEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGL-------VGVECITPYSYKSLAMA-LQRCVEVL  277 (277)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCS-------STTCCCSSSSSSSHHHH-HHHHHHTS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHCCCHH-HHHHHHHC
T ss_conf             56799999999958998999999998655989999999999734867-------88999999988512699-99999739

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.94  E-value=7.4e-24  Score=144.67  Aligned_cols=84  Identities=21%  Similarity=0.312  Sum_probs=45.2

Q ss_pred             CCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCC
Q ss_conf             99987499915997755893532677886998258677896122588878688752788976753213888786883427
Q 000869          369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN  448 (1247)
Q Consensus       369 ~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~  448 (1247)
                      .+.+|+.|+++++.++.+ +++..+++|++|++++|.++.++.++++++|++|++++|.+..++. ++.+++|+.|++++
T Consensus        42 ~l~~l~~L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~~~  119 (384)
T d2omza2          42 DLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLFN  119 (384)
T ss_dssp             HHTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCS
T ss_pred             HHCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCC
T ss_conf             957878998999898776-2424589999896818817988633477110103013433322221-11233433344332


Q ss_pred             CCCCCCC
Q ss_conf             7778643
Q 000869          449 CFKLKVI  455 (1247)
Q Consensus       449 ~~~l~~~  455 (1247)
                      + .+...
T Consensus       120 ~-~~~~~  125 (384)
T d2omza2         120 N-QITDI  125 (384)
T ss_dssp             S-CCCCC
T ss_pred             C-CCCCC
T ss_conf             2-22222

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.94  E-value=2.3e-24  Score=147.47  Aligned_cols=96  Identities=23%  Similarity=0.284  Sum_probs=66.1

Q ss_pred             ECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCC
Q ss_conf             91599775589353267788699825867789612258887868875278897675321388878688342777786439
Q 000869          377 DFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIA  456 (1247)
Q Consensus       377 ~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~  456 (1247)
                      .++.+.++... ....+.+|++|+++++.++.++.+..+++|++|++++|.++.+|. ++++++|++|++++| .+..++
T Consensus        28 ~l~~~~~~~~~-~~~~l~~l~~L~l~~~~I~~l~gl~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n-~i~~i~  104 (384)
T d2omza2          28 VLGKTNVTDTV-SQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNN-QIADIT  104 (384)
T ss_dssp             HTTCSSTTSEE-CHHHHTTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSS-CCCCCG
T ss_pred             HHCCCCCCCCC-CHHHHCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCCCCCCC-CCCCCC
T ss_conf             86777778863-988957878998999898776242458999989681881798863-347711010301343-332222


Q ss_pred             HHHHCCCCCCCEEEEECCCCC
Q ss_conf             123229999879990247444
Q 000869          457 PNVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       457 ~~~l~~L~~L~~L~l~~~~~~  477 (1247)
                      +  ++.+++|+.|++.++...
T Consensus       105 ~--l~~l~~L~~L~~~~~~~~  123 (384)
T d2omza2         105 P--LANLTNLTGLTLFNNQIT  123 (384)
T ss_dssp             G--GTTCTTCCEEECCSSCCC
T ss_pred             C--CCCCCCCCCCCCCCCCCC
T ss_conf             1--112334333443322222

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.91  E-value=5e-22  Score=134.57  Aligned_cols=120  Identities=19%  Similarity=0.295  Sum_probs=66.7

Q ss_pred             CCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCC--CCCCCCCCCCEEE
Q ss_conf             4499935899833434653443199987499915997755893-532677886998258677896--1225888786887
Q 000869          346 LEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILS  422 (1247)
Q Consensus       346 L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~-~i~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~  422 (1247)
                      .++++..++...   .+|..+   .+.+++|++++|.++.+|+ +|.++++|++|++++|.+..+  ..|..+++|++|+
T Consensus        12 ~~~~~C~~~~L~---~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~   85 (305)
T d1xkua_          12 LRVVQCSDLGLE---KVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLY   85 (305)
T ss_dssp             TTEEECTTSCCC---SCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEE
T ss_pred             CCEEEECCCCCC---CCCCCC---CCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEEC
T ss_conf             999985599988---519888---99979897849918986965760465652311234434452356652798557831


Q ss_pred             CCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECC
Q ss_conf             5278897675321388878688342777786439123229999879990247
Q 000869          423 FSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC  474 (1247)
Q Consensus       423 L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~  474 (1247)
                      +++|.++.+|..+  ...+..|.+..+ .+..+++..+.....+..+....+
T Consensus        86 l~~n~l~~l~~~~--~~~l~~L~~~~n-~l~~l~~~~~~~~~~~~~l~~~~n  134 (305)
T d1xkua_          86 LSKNQLKELPEKM--PKTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGTN  134 (305)
T ss_dssp             CCSSCCSBCCSSC--CTTCCEEECCSS-CCCBBCHHHHTTCTTCCEEECCSS
T ss_pred             CCCCCCCCCCCCH--HHHHHHHHCCCC-CHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             5687567676400--111323210246-102344445401331100001233

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.89  E-value=7e-22  Score=133.74  Aligned_cols=191  Identities=21%  Similarity=0.221  Sum_probs=131.3

Q ss_pred             CEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             33898247860012375899984499935899833434653443199987499915997755893532677886998258
Q 000869          324 CYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQ  403 (1247)
Q Consensus       324 ~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~  403 (1247)
                      ...++-.++.+..+|+.+. +++++|++++|.+.   .++...|..+++|++|++++|.++.+| .+..+++|++|++++
T Consensus        12 ~~~v~C~~~~L~~iP~~lp-~~l~~L~Ls~N~i~---~l~~~~f~~l~~L~~L~L~~N~l~~l~-~~~~l~~L~~L~Ls~   86 (266)
T d1p9ag_          12 HLEVNCDKRNLTALPPDLP-KDTTILHLSENLLY---TFSLATLMPYTRLTQLNLDRAELTKLQ-VDGTLPVLGTLDLSH   86 (266)
T ss_dssp             CCEEECTTSCCSSCCSCCC-TTCCEEECTTSCCS---EEEGGGGTTCTTCCEEECTTSCCCEEE-CCSCCTTCCEEECCS
T ss_pred             CEEEECCCCCCCEECCCCC-CCCCEEECCCCCCC---CCCHHHHHCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC
T ss_conf             8699806999886196757-68898988499289---859778634565522135665444431-111122321111122


Q ss_pred             CCCCCC-CCCCCCCCCCEEECCCCCCCCCC-HHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCCCC
Q ss_conf             677896-12258887868875278897675-3213888786883427777864391232299998799902474443349
Q 000869          404 CILGDV-AIIGKLKNLEILSFSGSGIVKLP-EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDE  481 (1247)
Q Consensus       404 ~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  481 (1247)
                      |.+... ..+..+++|++|+++++.+..++ ..+..+.++++|.+.++ .+..+++..+..+.+|+.+++.+|.+.    
T Consensus        87 N~l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n-~l~~l~~~~~~~l~~l~~l~l~~N~l~----  161 (266)
T d1p9ag_          87 NQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN-ELKTLPPGLLTPTPKLEKLSLANNNLT----  161 (266)
T ss_dssp             SCCSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTS-CCCCCCTTTTTTCTTCCEEECTTSCCS----
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCC-CCCEECCCCCCCCCCCHHCCCCCCCCC----
T ss_conf             222111112122222222222223110110011222211112212434-210221233322111000000015652----


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCHH-HCCCCCEEEEEEC
Q ss_conf             9995333456200179999869997614898778011-1023560568723
Q 000869          482 GPNSETINSRLDELMHLPRLTTLEVHVKNDNILPEGF-FARKLERFKISVG  531 (1247)
Q Consensus       482 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~-~~~~L~~l~l~~~  531 (1247)
                             ...+..+..+++|+.|+++.|.+..+|..+ ...+|+.+.+.+|
T Consensus       162 -------~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~N  205 (266)
T d1p9ag_         162 -------ELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGN  205 (266)
T ss_dssp             -------CCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSC
T ss_pred             -------CCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEEECCC
T ss_conf             -------23720013421242343013978556866777888999983699

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.89  E-value=1.3e-20  Score=126.74  Aligned_cols=99  Identities=25%  Similarity=0.336  Sum_probs=61.8

Q ss_pred             CCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC--CCCCCCCCCCEEECCCCCCCCC-CHHHCCCCCCCEEECCC
Q ss_conf             87499915997755893532677886998258677896--1225888786887527889767-53213888786883427
Q 000869          372 KLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKL-PEELGQLTKLRHLDLSN  448 (1247)
Q Consensus       372 ~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~l-p~~i~~L~~L~~L~L~~  448 (1247)
                      .++.++-++..++.+|..+.  +++++|++++|.++.+  ..|.++++|++|+++++.+..+ |..|.++++|++|++++
T Consensus        11 ~~~~~~C~~~~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~~   88 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEEECCCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCCC
T ss_conf             59999855999885198889--9979897849918986965760465652311234434452356652798557831568


Q ss_pred             CCCCCCCCHHHHCCCCCCCEEEEECCCC
Q ss_conf             7778643912322999987999024744
Q 000869          449 CFKLKVIAPNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       449 ~~~l~~~~~~~l~~L~~L~~L~l~~~~~  476 (1247)
                      | .++.++..   ....++.|...++.+
T Consensus        89 n-~l~~l~~~---~~~~l~~L~~~~n~l  112 (305)
T d1xkua_          89 N-QLKELPEK---MPKTLQELRVHENEI  112 (305)
T ss_dssp             S-CCSBCCSS---CCTTCCEEECCSSCC
T ss_pred             C-CCCCCCCC---HHHHHHHHHCCCCCH
T ss_conf             7-56767640---011132321024610

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.88  E-value=1.3e-21  Score=132.23  Aligned_cols=132  Identities=17%  Similarity=0.305  Sum_probs=95.9

Q ss_pred             CCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCC-CCCC-CCCCCCCCCCCCCEEECCCCCCCCC--CCCCCCCCCC
Q ss_conf             9844999358998334346534431999874999159-9775-5893532677886998258677896--1225888786
Q 000869          344 PQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCR-MQFF-SLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLE  419 (1247)
Q Consensus       344 ~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~-~~~~-~lp~~i~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~  419 (1247)
                      .+++.|+++++.+.+...+|..+ ..+++|++|++++ |.+. .+|++|+++++|++|++++|.+..+  ..+..+.+|+
T Consensus        50 ~~v~~L~L~~~~l~g~~~lp~~l-~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          50 YRVNNLDLSGLNLPKPYPIPSSL-ANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCEEEEEEECCCCSSCEECCGGG-GGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             EEEEEEECCCCCCCCCCCCCHHH-HCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHC
T ss_conf             79889989899888888798478-46753352020265433300243114542001102035643443322222011100


Q ss_pred             EEECCCCCCC-CCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCC-CEEEEECCCCC
Q ss_conf             8875278897-6753213888786883427777864391232299998-79990247444
Q 000869          420 ILSFSGSGIV-KLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRL-EELYMSNCFVE  477 (1247)
Q Consensus       420 ~L~L~~~~i~-~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L-~~L~l~~~~~~  477 (1247)
                      +++++++.+. .+|..++++++|++++++++ .+....|..+..+..+ +.+.+..+.+.
T Consensus       129 ~l~l~~N~~~~~~p~~l~~l~~L~~l~l~~n-~l~~~ip~~~~~l~~l~~~l~~~~n~l~  187 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPSISSLPNLVGITFDGN-RISGAIPDSYGSFSKLFTSMTISRNRLT  187 (313)
T ss_dssp             EEECCSSEEESCCCGGGGGCTTCCEEECCSS-CCEEECCGGGGCCCTTCCEEECCSSEEE
T ss_pred             CCCCCCCCCCCCCCHHHCCCCCCCEEECCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             1111224555568512206740000002355-3356203121443112323102246435

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.88  E-value=1.8e-21  Score=131.54  Aligned_cols=104  Identities=25%  Similarity=0.328  Sum_probs=50.7

Q ss_pred             CCCEEECCCCCCC---CCCCCCCCCCCCCEEECCC-CCCC-CC-CCCCCCCCCCEEECCCCCCCCC-CHHHCCCCCCCEE
Q ss_conf             8749991599775---5893532677886998258-6778-96-1225888786887527889767-5321388878688
Q 000869          372 KLKVVDFCRMQFF---SLPPSIDHLLNLQTLCLDQ-CILG-DV-AIIGKLKNLEILSFSGSGIVKL-PEELGQLTKLRHL  444 (1247)
Q Consensus       372 ~Lr~L~L~~~~~~---~lp~~i~~l~~L~~L~L~~-~~l~-~~-~~~~~L~~L~~L~L~~~~i~~l-p~~i~~L~~L~~L  444 (1247)
                      +++.|+|+++.+.   .+|+.++++++|++|+|++ +.+. .+ +.+++|.+|++|++++|.+..+ |..+..+.+|+++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l  130 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTL  130 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEE
T ss_pred             EEEEEECCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCCC
T ss_conf             98899898998888887984784675335202026543330024311454200110203564344332222201110011


Q ss_pred             ECCCCCCCCCCCHHHHCCCCCCCEEEEECCCC
Q ss_conf             34277778643912322999987999024744
Q 000869          445 DLSNCFKLKVIAPNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       445 ~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  476 (1247)
                      +++.| ......|..+++++.|+.+++.++.+
T Consensus       131 ~l~~N-~~~~~~p~~l~~l~~L~~l~l~~n~l  161 (313)
T d1ogqa_         131 DFSYN-ALSGTLPPSISSLPNLVGITFDGNRI  161 (313)
T ss_dssp             ECCSS-EEESCCCGGGGGCTTCCEEECCSSCC
T ss_pred             CCCCC-CCCCCCCHHHCCCCCCCEEECCCCCC
T ss_conf             11224-55556851220674000000235533

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.87  E-value=1.5e-20  Score=126.33  Aligned_cols=171  Identities=18%  Similarity=0.207  Sum_probs=87.5

Q ss_pred             CCCEEEECCCCCCCCCCCC--CCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             3433898247860012375--89998449993589983343465344319998749991599775589353267788699
Q 000869          322 RKCYAISIRDSSIHELLEG--LECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTL  399 (1247)
Q Consensus       322 ~~~~~l~l~~~~i~~~~~~--~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L  399 (1247)
                      .+++++++.+|.+..++..  .++++|+.|++++|.+.   .++.  +..+++|++|++++|.+...+..+..+.+|++|
T Consensus        31 ~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~---~l~~--~~~l~~L~~L~Ls~N~l~~~~~~~~~l~~L~~L  105 (266)
T d1p9ag_          31 KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT---KLQV--DGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVL  105 (266)
T ss_dssp             TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCC---EEEC--CSCCTTCCEEECCSSCCSSCCCCTTTCTTCCEE
T ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCC---CCCC--CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             68898988499289859778634565522135665444---4311--111223211111222221111121222222222


Q ss_pred             ECCCCCCCCC--CCCCCCCCCCEEECCCCCCCCCCHH-HCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCC
Q ss_conf             8258677896--1225888786887527889767532-138887868834277778643912322999987999024744
Q 000869          400 CLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEE-LGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       400 ~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  476 (1247)
                      +++++.+..+  ..+..+.++++|+++++.+..+|.. +..+++|+.+++++| .++.+++..+..+.+|++|++++|.+
T Consensus       106 ~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l~l~~N-~l~~~~~~~~~~l~~L~~L~Ls~N~L  184 (266)
T d1p9ag_         106 DVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN-NLTELPAGLLNGLENLDTLLLQENSL  184 (266)
T ss_dssp             ECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECTTS-CCSCCCTTTTTTCTTCCEEECCSSCC
T ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCHHCCCCCC-CCCCCCCCCCCCCCCCCEEECCCCCC
T ss_conf             22223110110011222211112212434210221233322111000000015-65223720013421242343013978


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             4334999953334562001799998699976148
Q 000869          477 EWEDEGPNSETINSRLDELMHLPRLTTLEVHVKN  510 (1247)
Q Consensus       477 ~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  510 (1247)
                      .            ..+..+..+++|+.|++++|.
T Consensus       185 ~------------~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         185 Y------------TIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             C------------CCCTTTTTTCCCSEEECCSCC
T ss_pred             C------------CCCHHHCCCCCCCEEEECCCC
T ss_conf             5------------568667778889999836999

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.86  E-value=2e-18  Score=114.66  Aligned_cols=135  Identities=27%  Similarity=0.271  Sum_probs=68.5

Q ss_pred             CCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             44999358998334346534431999874999159977558935326778869982586778961225888786887527
Q 000869          346 LEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSG  425 (1247)
Q Consensus       346 L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~  425 (1247)
                      ++.|+++++.+.   .+|+    ..++|++|++++|.++.+|..+   .+|+.|++.++.+..++.+.  ..|++|++++
T Consensus        40 l~~LdLs~~~L~---~lp~----~~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~lp--~~L~~L~L~~  107 (353)
T d1jl5a_          40 AHELELNNLGLS---SLPE----LPPHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSDLP--PLLEYLGVSN  107 (353)
T ss_dssp             CSEEECTTSCCS---CCCS----CCTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCSCC--TTCCEEECCS
T ss_pred             CCEEEECCCCCC---CCCC----CCCCCCEEECCCCCCCCCCCCH---HHHHHHHHHHCCCCHHHHHC--CCCCCCCCCC
T ss_conf             989993799988---7889----8789888989999796336203---32033266551432032102--2111113345


Q ss_pred             CCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             88976753213888786883427777864391232299998799902474443349999533345620017999986999
Q 000869          426 SGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLE  505 (1247)
Q Consensus       426 ~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  505 (1247)
                      +.+..+|. ++++++|++|+++++ .+...+.    ....+..+.+..+...             ....+..++.++.+.
T Consensus       108 n~l~~lp~-~~~l~~L~~L~l~~~-~~~~~~~----~~~~l~~l~~~~~~~~-------------~~~~l~~l~~l~~L~  168 (353)
T d1jl5a_         108 NQLEKLPE-LQNSSFLKIIDVDNN-SLKKLPD----LPPSLEFIAAGNNQLE-------------ELPELQNLPFLTAIY  168 (353)
T ss_dssp             SCCSSCCC-CTTCTTCCEEECCSS-CCSCCCC----CCTTCCEEECCSSCCS-------------SCCCCTTCTTCCEEE
T ss_pred             CCCCCCCC-HHHHCCCEEECCCCC-CCCCCCC----CCCCCCCHHHCCCCCC-------------CCCCCCCCCCCEECC
T ss_conf             54322210-011013123113565-1001322----3333210000122222-------------333200012220011


Q ss_pred             EEECCC
Q ss_conf             761489
Q 000869          506 VHVKND  511 (1247)
Q Consensus       506 l~~~~~  511 (1247)
                      +..+..
T Consensus       169 l~~n~~  174 (353)
T d1jl5a_         169 ADNNSL  174 (353)
T ss_dssp             CCSSCC
T ss_pred             CCCCCC
T ss_conf             123344

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=1.1e-19  Score=121.71  Aligned_cols=181  Identities=25%  Similarity=0.384  Sum_probs=91.0

Q ss_pred             HCCCCEEEECCCCCCCCCCCC--CCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCC-CCCCCC-CCCCCCCCC
Q ss_conf             103433898247860012375--8999844999358998334346534431999874999159-977558-935326778
Q 000869          320 ALRKCYAISIRDSSIHELLEG--LECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCR-MQFFSL-PPSIDHLLN  395 (1247)
Q Consensus       320 ~~~~~~~l~l~~~~i~~~~~~--~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~-~~~~~l-p~~i~~l~~  395 (1247)
                      ....++.+++.+|.+..++..  .++++|+.|+++++.+.   .++...+..+..++.+.... +.+..+ +..+..+++
T Consensus        30 ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~---~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~  106 (284)
T d1ozna_          30 IPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLA---RIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR  106 (284)
T ss_dssp             CCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCC---EECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTT
T ss_pred             CCCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCC
T ss_conf             8999888977488179879778641421300001344543---3211121222222222222102235446201010102


Q ss_pred             CCEEECCCCCCCCC--CCCCCCCCCCEEECCCCCCCCCC-HHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEE
Q ss_conf             86998258677896--12258887868875278897675-3213888786883427777864391232299998799902
Q 000869          396 LQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLP-EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMS  472 (1247)
Q Consensus       396 L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~  472 (1247)
                      |++|++++|.+..+  ..+....+|+.++++++.++.+| ..+..+.+|++|++++| .++.+++..+..+++|+.+.+.
T Consensus       107 L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N-~l~~l~~~~f~~l~~L~~l~l~  185 (284)
T d1ozna_         107 LHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGN-RISSVPERAFRGLHSLDRLLLH  185 (284)
T ss_dssp             CCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSS-CCCEECTTTTTTCTTCCEEECC
T ss_pred             CCEEECCCCCCCCCCCCCCCHHCCCCHHHHCCCCCCCCCHHHHCCCCCHHHCCCCCC-CCCCCCHHHHCCCCCCCHHHHH
T ss_conf             778756885443201353320001211020014314458057404340502231417-6566256665465634131421


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCC
Q ss_conf             4744433499995333456200179999869997614898778
Q 000869          473 NCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVKNDNILP  515 (1247)
Q Consensus       473 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~  515 (1247)
                      +|.+.           ...+..+..+++|+.|+++.+....++
T Consensus       186 ~N~l~-----------~i~~~~f~~l~~L~~L~l~~N~i~~~~  217 (284)
T d1ozna_         186 QNRVA-----------HVHPHAFRDLGRLMTLYLFANNLSALP  217 (284)
T ss_dssp             SSCCC-----------EECTTTTTTCTTCCEEECCSSCCSCCC
T ss_pred             HCCCC-----------CCCHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf             14346-----------628167665320002333335221000

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.85  E-value=5.1e-18  Score=112.40  Aligned_cols=136  Identities=20%  Similarity=0.243  Sum_probs=75.5

Q ss_pred             CCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECC
Q ss_conf             43389824786001237589998449993589983343465344319998749991599775589353267788699825
Q 000869          323 KCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLD  402 (1247)
Q Consensus       323 ~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~  402 (1247)
                      +++++++.++.+..+|+.  .++|++|++++|.+.   .+|.    .+.+|+.|+++++.++.+++ +  ...|++|+++
T Consensus        39 ~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~---~lp~----~~~~L~~L~l~~n~l~~l~~-l--p~~L~~L~L~  106 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL--PPHLESLVASCNSLT---ELPE----LPQSLKSLLVDNNNLKALSD-L--PPLLEYLGVS  106 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC--CTTCSEEECCSSCCS---SCCC----CCTTCCEEECCSSCCSCCCS-C--CTTCCEEECC
T ss_pred             CCCEEEECCCCCCCCCCC--CCCCCEEECCCCCCC---CCCC----CHHHHHHHHHHHCCCCHHHH-H--CCCCCCCCCC
T ss_conf             998999379998878898--789888989999796---3362----03320332665514320321-0--2211111334


Q ss_pred             CCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCC
Q ss_conf             86778961225888786887527889767532138887868834277778643912322999987999024744
Q 000869          403 QCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       403 ~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  476 (1247)
                      +|.+..++.++.+.+|++|+++++.+...|..   ...+..+.+..+ .....  ..+..+..++.+.+..+..
T Consensus       107 ~n~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~---~~~l~~l~~~~~-~~~~~--~~l~~l~~l~~L~l~~n~~  174 (353)
T d1jl5a_         107 NNQLEKLPELQNSSFLKIIDVDNNSLKKLPDL---PPSLEFIAAGNN-QLEEL--PELQNLPFLTAIYADNNSL  174 (353)
T ss_dssp             SSCCSSCCCCTTCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSS-CCSSC--CCCTTCTTCCEEECCSSCC
T ss_pred             CCCCCCCCCHHHHCCCEEECCCCCCCCCCCCC---CCCCCCHHHCCC-CCCCC--CCCCCCCCCEECCCCCCCC
T ss_conf             55432221001101312311356510013223---333210000122-22233--3200012220011123344

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=2.7e-20  Score=124.97  Aligned_cols=171  Identities=19%  Similarity=0.234  Sum_probs=116.8

Q ss_pred             EECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCC-CCCCCCCCCCEEECCC-C
Q ss_conf             9824786001237589998449993589983343465344319998749991599775589-3532677886998258-6
Q 000869          327 ISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLP-PSIDHLLNLQTLCLDQ-C  404 (1247)
Q Consensus       327 l~l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp-~~i~~l~~L~~L~L~~-~  404 (1247)
                      +...++....+|..+ .+.+++|++++|.+.   .++...|..++.|++|+++++.+..++ ..+..+..++.+.... +
T Consensus        16 v~c~~~~L~~iP~~i-p~~~~~L~Ls~N~i~---~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~   91 (284)
T d1ozna_          16 TSCPQQGLQAVPVGI-PAASQRIFLHGNRIS---HVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNA   91 (284)
T ss_dssp             EECCSSCCSSCCTTC-CTTCSEEECTTSCCC---EECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCT
T ss_pred             EECCCCCCCCCCCCC-CCCCCEEECCCCCCC---CCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             984799989449788-999888977488179---8797786414213000013445433211121222222222222102


Q ss_pred             CCCCC--CCCCCCCCCCEEECCCCCCCCCC-HHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCCCC
Q ss_conf             77896--12258887868875278897675-3213888786883427777864391232299998799902474443349
Q 000869          405 ILGDV--AIIGKLKNLEILSFSGSGIVKLP-EELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDE  481 (1247)
Q Consensus       405 ~l~~~--~~~~~L~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~  481 (1247)
                      .+..+  ..+..+++|++|+++++.+..++ ..+..+.+|+.++++++ .++.+++..+..+.+|++|++.++.+..   
T Consensus        92 ~~~~l~~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~~~f~~~~~L~~L~l~~N~l~~---  167 (284)
T d1ozna_          92 QLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNRISS---  167 (284)
T ss_dssp             TCCCCCTTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCE---
T ss_pred             CCCCCCCHHHCCCCCCCEEECCCCCCCCCCCCCCCHHCCCCHHHHCCC-CCCCCCHHHHCCCCCHHHCCCCCCCCCC---
T ss_conf             235446201010102778756885443201353320001211020014-3144580574043405022314176566---


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEEEEEECCCCC
Q ss_conf             99953334562001799998699976148987
Q 000869          482 GPNSETINSRLDELMHLPRLTTLEVHVKNDNI  513 (1247)
Q Consensus       482 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  513 (1247)
                              .....+..+++|+.+.+..+....
T Consensus       168 --------l~~~~f~~l~~L~~l~l~~N~l~~  191 (284)
T d1ozna_         168 --------VPERAFRGLHSLDRLLLHQNRVAH  191 (284)
T ss_dssp             --------ECTTTTTTCTTCCEEECCSSCCCE
T ss_pred             --------CCHHHHCCCCCCCHHHHHHCCCCC
T ss_conf             --------256665465634131421143466

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.83  E-value=5.2e-19  Score=117.87  Aligned_cols=167  Identities=25%  Similarity=0.369  Sum_probs=131.3

Q ss_pred             HHCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCE
Q ss_conf             11034338982478600123758999844999358998334346534431999874999159977558935326778869
Q 000869          319 DALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQT  398 (1247)
Q Consensus       319 ~~~~~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~  398 (1247)
                      ..+++++++.+..+.+..++....+++|++|++++|.+.   .++.  +..+++|++|++++|.++.+| .+..+++|+.
T Consensus        43 ~~L~~L~~L~l~~~~i~~l~~l~~l~~L~~L~L~~n~i~---~l~~--~~~l~~L~~L~l~~n~i~~l~-~l~~l~~L~~  116 (210)
T d1h6ta2          43 NELNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLT---DIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKS  116 (210)
T ss_dssp             HHHHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCC---CCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCE
T ss_pred             HHHCCCCEEECCCCCCCCCHHHHHCCCCCEEECCCCCCC---CCCC--CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCC
T ss_conf             795484589782798887444764899898769896025---8601--135862120143333321222-1212221112


Q ss_pred             EECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCC
Q ss_conf             98258677896122588878688752788976753213888786883427777864391232299998799902474443
Q 000869          399 LCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEW  478 (1247)
Q Consensus       399 L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~  478 (1247)
                      |++++|.+..++.+..+.+++.++++++.+...+ .+..+++|+++++++| .+..+++  +.++++|++|++++|.+. 
T Consensus       117 L~l~~~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n-~l~~i~~--l~~l~~L~~L~Ls~N~i~-  191 (210)
T d1h6ta2         117 LSLEHNGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDN-QISDIVP--LAGLTKLQNLYLSKNHIS-  191 (210)
T ss_dssp             EECTTSCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCC-
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCCC--CCCCCCCCEEECCCCCCC-
T ss_conf             2345653221122011111222112223334543-1000133210013464-3025645--367898999989799899-


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCEEEEEE
Q ss_conf             349999533345620017999986999761
Q 000869          479 EDEGPNSETINSRLDELMHLPRLTTLEVHV  508 (1247)
Q Consensus       479 ~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~  508 (1247)
                                  .+..+..+++|+.|+++.
T Consensus       192 ------------~l~~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         192 ------------DLRALAGLKNLDVLELFS  209 (210)
T ss_dssp             ------------BCGGGTTCTTCSEEEEEE
T ss_pred             ------------CCHHHCCCCCCCEEECCC
T ss_conf             ------------872116999989997118

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.82  E-value=9.1e-19  Score=116.52  Aligned_cols=162  Identities=22%  Similarity=0.297  Sum_probs=101.1

Q ss_pred             HCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             10343389824786001237589998449993589983343465344319998749991599775589353267788699
Q 000869          320 ALRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTL  399 (1247)
Q Consensus       320 ~~~~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L  399 (1247)
                      .+.+++.+.+.++.+..+.....+++|++|++++|.+.   .+++  +..+++|++|++++|.+..++ .+..+.+|+.|
T Consensus        38 ~l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~---~~~~--l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L  111 (199)
T d2omxa2          38 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLT---DITP--LKNLTKLVDILMNNNQIADIT-PLANLTNLTGL  111 (199)
T ss_dssp             HHTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCC---CCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEE
T ss_pred             HHCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCC--CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCC
T ss_conf             94687899899999977520213788675754565566---7640--167752231111222222221-11112232221


Q ss_pred             ECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCC
Q ss_conf             82586778961225888786887527889767532138887868834277778643912322999987999024744433
Q 000869          400 CLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWE  479 (1247)
Q Consensus       400 ~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~  479 (1247)
                      ++++|....+..+..+++|++|+++++.+..++ .+..+++|+.|++.+| .++.+++  ++++++|++|++++|.+.  
T Consensus       112 ~l~~~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n-~l~~l~~--l~~l~~L~~L~ls~N~i~--  185 (199)
T d2omxa2         112 TLFNNQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSN-QVTDLKP--LANLTTLERLDISSNKVS--  185 (199)
T ss_dssp             ECCSSCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSS-CCCCCGG--GTTCTTCCEEECCSSCCC--
T ss_pred             CCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCC-CCCCCCCCCCCCCCCC-CCCCCCC--CCCCCCCCEEECCCCCCC--
T ss_conf             112222223210001223677643111100234-3332111111223455-5567701--167998999978799799--


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             4999953334562001799998699
Q 000869          480 DEGPNSETINSRLDELMHLPRLTTL  504 (1247)
Q Consensus       480 ~~~~~~~~~~~~~~~l~~l~~L~~L  504 (1247)
                                 .+..+..+++|+.|
T Consensus       186 -----------~i~~l~~L~~L~~L  199 (199)
T d2omxa2         186 -----------DISVLAKLTNLESL  199 (199)
T ss_dssp             -----------CCGGGGGCTTCSEE
T ss_pred             -----------CCCCCCCCCCCCCC
T ss_conf             -----------88101278998949

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.81  E-value=3.2e-18  Score=113.51  Aligned_cols=144  Identities=19%  Similarity=0.271  Sum_probs=51.3

Q ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             03433898247860012375899984499935899833434653443199987499915997755893532677886998
Q 000869          321 LRKCYAISIRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLC  400 (1247)
Q Consensus       321 ~~~~~~l~l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~  400 (1247)
                      +.+++.+++.++.+..++....+++|+.|++++|.+..   +.+  +..++++++++++++.++.++ .+.++++|+++.
T Consensus        40 l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~---~~~--l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~  113 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITD---LAP--LKNLTKITELELSGNPLKNVS-AIAGLQSIKTLD  113 (227)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCC---CGG--GTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEE
T ss_pred             CCCCCEEECCCCCCCCCHHHHCCCCCCEEECCCCEEEC---CCC--CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCC
T ss_conf             48868997779999766457448888376357853202---543--112334320121112222222-222222221221


Q ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECC
Q ss_conf             25867789612258887868875278897675321388878688342777786439123229999879990247
Q 000869          401 LDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNC  474 (1247)
Q Consensus       401 L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~  474 (1247)
                      ++++....+..+.....++.+.++.+.+...+ .+..+++|++|++++| .+....+  ++++++|+.|++++|
T Consensus       114 l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~l~~n-~~~~~~~--l~~l~~L~~L~Ls~n  183 (227)
T d1h6ua2         114 LTSTQITDVTPLAGLSNLQVLYLDLNQITNIS-PLAGLTNLQYLSIGNA-QVSDLTP--LANLSKLTTLKADDN  183 (227)
T ss_dssp             CTTSCCCCCGGGTTCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSS-CCCCCGG--GTTCTTCCEEECCSS
T ss_pred             CCCCCCCCCCHHCCCCCHHHHHCHHHHHCHHH-HHCCCCCCCCCCCCCC-CCCCCHH--HCCCCCCEECCCCCC
T ss_conf             22244331100000230122200000000000-0010211100233333-3331001--056463356445888

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.81  E-value=1e-18  Score=116.19  Aligned_cols=164  Identities=21%  Similarity=0.353  Sum_probs=107.9

Q ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCC
Q ss_conf             24786001237589998449993589983343465344319998749991599775589353267788699825867789
Q 000869          329 IRDSSIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGD  408 (1247)
Q Consensus       329 l~~~~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~  408 (1247)
                      +..+.+.......++++++.|+++++.+.   .+..  ++.+++|++|++++|.++.++. +..+++|++|++++|.+..
T Consensus        25 l~~~~~~~~~~~~~l~~l~~L~l~~~~i~---~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~   98 (199)
T d2omxa2          25 LGKTNVTDTVSQTDLDQVTTLQADRLGIK---SIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIAD   98 (199)
T ss_dssp             TTCSSTTSEECHHHHTTCCEEECTTSCCC---CCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCC
T ss_pred             HCCCCCCCCCCHHHHCCCCEEECCCCCCC---CCCC--CCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCC
T ss_conf             67787788559879468789989999997---7520--2137886757545655667640-1677522311112222222


Q ss_pred             CCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf             61225888786887527889767532138887868834277778643912322999987999024744433499995333
Q 000869          409 VAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETI  488 (1247)
Q Consensus       409 ~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~  488 (1247)
                      ++.+..+.+|++|+++++.+..++ .+..+++|+.|++++| .+..++  .+..+.+|+.|++.+|.+.           
T Consensus        99 ~~~l~~l~~L~~L~l~~~~~~~~~-~~~~l~~L~~L~l~~n-~l~~~~--~l~~~~~L~~L~l~~n~l~-----------  163 (199)
T d2omxa2          99 ITPLANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELSSN-TISDIS--ALSGLTSLQQLNFSSNQVT-----------  163 (199)
T ss_dssp             CGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSS-CCCCCG--GGTTCTTCSEEECCSSCCC-----------
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCC-CCCHHHHHHHHHHHHH-HHCCCC--CCCCCCCCCCCCCCCCCCC-----------
T ss_conf             211111223222111222222321-0001223677643111-100234--3332111111223455556-----------


Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCCCCC
Q ss_conf             456200179999869997614898778
Q 000869          489 NSRLDELMHLPRLTTLEVHVKNDNILP  515 (1247)
Q Consensus       489 ~~~~~~l~~l~~L~~L~l~~~~~~~~~  515 (1247)
                        .+..++++++|+.|+++++.+..++
T Consensus       164 --~l~~l~~l~~L~~L~ls~N~i~~i~  188 (199)
T d2omxa2         164 --DLKPLANLTTLERLDISSNKVSDIS  188 (199)
T ss_dssp             --CCGGGTTCTTCCEEECCSSCCCCCG
T ss_pred             --CCCCCCCCCCCCEEECCCCCCCCCC
T ss_conf             --7701167998999978799799881

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.80  E-value=6.1e-19  Score=117.47  Aligned_cols=79  Identities=19%  Similarity=0.315  Sum_probs=33.9

Q ss_pred             CCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCC
Q ss_conf             99987499915997755893532677886998258677896122588878688752788976753213888786883427
Q 000869          369 GMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSN  448 (1247)
Q Consensus       369 ~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~  448 (1247)
                      .+.+|+.|++.++.++.+ +.+..+++|++|++++|.+..+..+.++.+|++++++++.++.++ .+..+++|+.+.+++
T Consensus        39 ~l~~L~~L~l~~~~i~~l-~~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~l~~  116 (227)
T d1h6ua2          39 DLDGITTLSAFGTGVTTI-EGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLTS  116 (227)
T ss_dssp             HHHTCCEEECTTSCCCCC-TTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECTT
T ss_pred             HCCCCCEEECCCCCCCCC-HHHHCCCCCCEEECCCCEEECCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC
T ss_conf             848868997779999766-457448888376357853202543112334320121112222222-222222221221222


Q ss_pred             C
Q ss_conf             7
Q 000869          449 C  449 (1247)
Q Consensus       449 ~  449 (1247)
                      +
T Consensus       117 ~  117 (227)
T d1h6ua2         117 T  117 (227)
T ss_dssp             S
T ss_pred             C
T ss_conf             4

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.80  E-value=2.1e-18  Score=114.53  Aligned_cols=150  Identities=23%  Similarity=0.302  Sum_probs=82.4

Q ss_pred             CCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEE
Q ss_conf             99984499935899833434653443199987499915997755893532677886998258677896122588878688
Q 000869          342 ECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEIL  421 (1247)
Q Consensus       342 ~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L  421 (1247)
                      .+..++.|++.++.+.   .++.  ++.+++|++|++++|.++.++ .+..+++|++|++++|.++.++.+..+++|++|
T Consensus        44 ~L~~L~~L~l~~~~i~---~l~~--l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n~i~~l~~l~~l~~L~~L  117 (210)
T d1h6ta2          44 ELNSIDQIIANNSDIK---SVQG--IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENKVKDLSSLKDLKKLKSL  117 (210)
T ss_dssp             HHHTCCEEECTTSCCC---CCTT--GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCGGGGTTCTTCCEE
T ss_pred             HHCCCCEEECCCCCCC---CCHH--HHHCCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             9548458978279888---7444--764899898769896025860-113586212014333332122212122211122


Q ss_pred             ECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             75278897675321388878688342777786439123229999879990247444334999953334562001799998
Q 000869          422 SFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRL  501 (1247)
Q Consensus       422 ~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L  501 (1247)
                      +++++.+..++ .+..+++++.++++++ .+....  .+..+++|+++++.++.+.             .+..+.++++|
T Consensus       118 ~l~~~~~~~~~-~l~~l~~l~~l~~~~n-~l~~~~--~~~~l~~L~~l~l~~n~l~-------------~i~~l~~l~~L  180 (210)
T d1h6ta2         118 SLEHNGISDIN-GLVHLPQLESLYLGNN-KITDIT--VLSRLTKLDTLSLEDNQIS-------------DIVPLAGLTKL  180 (210)
T ss_dssp             ECTTSCCCCCG-GGGGCTTCCEEECCSS-CCCCCG--GGGGCTTCSEEECCSSCCC-------------CCGGGTTCTTC
T ss_pred             CCCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCC--CCCCCCCCCCCCCCCCCCC-------------CCCCCCCCCCC
T ss_conf             34565322112-2011111222112223-334543--1000133210013464302-------------56453678989


Q ss_pred             CEEEEEECCCCCC
Q ss_conf             6999761489877
Q 000869          502 TTLEVHVKNDNIL  514 (1247)
Q Consensus       502 ~~L~l~~~~~~~~  514 (1247)
                      +.|+++.|.+..+
T Consensus       181 ~~L~Ls~N~i~~l  193 (210)
T d1h6ta2         181 QNLYLSKNHISDL  193 (210)
T ss_dssp             CEEECCSSCCCBC
T ss_pred             CEEECCCCCCCCC
T ss_conf             9998979989987

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=3.3e-19  Score=118.93  Aligned_cols=15  Identities=27%  Similarity=0.344  Sum_probs=5.7

Q ss_pred             HHHHCCCCEEEECCC
Q ss_conf             854101471546034
Q 000869          835 LRSFEHLQHLEIACC  849 (1247)
Q Consensus       835 ~~~l~~L~~L~i~~c  849 (1247)
                      +..+++|++|.+++|
T Consensus        67 ~~~c~~L~~L~L~~~   81 (284)
T d2astb2          67 LSQCSKLQNLSLEGL   81 (284)
T ss_dssp             HTTBCCCSEEECTTC
T ss_pred             HHHCCCCCCCCCCCC
T ss_conf             974877651452346

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=1e-15  Score=99.63  Aligned_cols=101  Identities=19%  Similarity=0.276  Sum_probs=47.7

Q ss_pred             CEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC--CCCCCCCCCCEEECCCCCCCC-CC-HHHCCCCCCCEEECCCC
Q ss_conf             499915997755893532677886998258677896--122588878688752788976-75-32138887868834277
Q 000869          374 KVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVK-LP-EELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       374 r~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~-lp-~~i~~L~~L~~L~L~~~  449 (1247)
                      ++++.++..++.+|..+.  .++++|++++|.+..+  ..|.++++|++|+++++.+.. ++ ..|..+++++++.+..+
T Consensus        11 ~~i~c~~~~l~~iP~~l~--~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CEEEEECCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCC
T ss_conf             999981899887688889--988999876991896496686146432321102211242010011222222222111112


Q ss_pred             CCCCCCCHHHHCCCCCCCEEEEECCCC
Q ss_conf             778643912322999987999024744
Q 000869          450 FKLKVIAPNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       450 ~~l~~~~~~~l~~L~~L~~L~l~~~~~  476 (1247)
                      ..+...++..+.++.+|+++++.++.+
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~~~l  115 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISNTGI  115 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEESCCC
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             343222222122222222223421111

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=4.2e-15  Score=96.27  Aligned_cols=78  Identities=14%  Similarity=0.232  Sum_probs=30.9

Q ss_pred             CCCEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCC-C--CCCCCCCCCCEEECCC-CCCCCCC-HHHCCCCCCCEEE
Q ss_conf             87499915997755893-53267788699825867789-6--1225888786887527-8897675-3213888786883
Q 000869          372 KLKVVDFCRMQFFSLPP-SIDHLLNLQTLCLDQCILGD-V--AIIGKLKNLEILSFSG-SGIVKLP-EELGQLTKLRHLD  445 (1247)
Q Consensus       372 ~Lr~L~L~~~~~~~lp~-~i~~l~~L~~L~L~~~~l~~-~--~~~~~L~~L~~L~L~~-~~i~~lp-~~i~~L~~L~~L~  445 (1247)
                      ++++|++++|.++.+|. .|.++++|++|++++|.+.. +  ..+..+..++++++.. +.+..++ ..+..+++|++++
T Consensus        30 ~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~n~l~~~~~~~~~~l~~L~~l~  109 (242)
T d1xwdc1          30 NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLL  109 (242)
T ss_dssp             CCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECCTTCCEECTTSEECCTTCCEEE
T ss_pred             CCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             88999876991896496686146432321102211242010011222222222111112343222222122222222223


Q ss_pred             CCCC
Q ss_conf             4277
Q 000869          446 LSNC  449 (1247)
Q Consensus       446 L~~~  449 (1247)
                      ++++
T Consensus       110 l~~~  113 (242)
T d1xwdc1         110 ISNT  113 (242)
T ss_dssp             EESC
T ss_pred             CCHH
T ss_conf             4211

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=3.7e-16  Score=102.10  Aligned_cols=109  Identities=18%  Similarity=0.172  Sum_probs=56.5

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHH-CCCCCCCEEEC
Q ss_conf             19998749991599775589353267788699825867789612258887868875278897675321-38887868834
Q 000869          368 TGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEEL-GQLTKLRHLDL  446 (1247)
Q Consensus       368 ~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i-~~L~~L~~L~L  446 (1247)
                      .++..+|.|++++|.|+.++..+..+.+|++|++++|.++.++.+..+++|++|++++|.+..+|..+ ..+++|++|++
T Consensus        15 ~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L   94 (162)
T d1a9na_          15 TNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELIL   94 (162)
T ss_dssp             ECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEEC
T ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEE
T ss_conf             68574848978899788657620041459989897997876477445761306431021345777632233453443420


Q ss_pred             CCCCCCCCCCH-HHHCCCCCCCEEEEECCCCC
Q ss_conf             27777864391-23229999879990247444
Q 000869          447 SNCFKLKVIAP-NVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       447 ~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~~~  477 (1247)
                      ++| .++.++. ..+..+++|++|++.+|.+.
T Consensus        95 ~~N-~i~~~~~l~~l~~l~~L~~L~l~~N~i~  125 (162)
T d1a9na_          95 TNN-SLVELGDLDPLASLKSLTYLCILRNPVT  125 (162)
T ss_dssp             CSC-CCCCGGGGGGGGGCTTCCEEECCSSGGG
T ss_pred             CCC-CCCCCCCCCCCCCCCCCCHHHCCCCCCC
T ss_conf             300-0166542110013653206640799634

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=3.6e-16  Score=102.15  Aligned_cols=133  Identities=16%  Similarity=0.163  Sum_probs=94.3

Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC-C-
Q ss_conf             60012375899984499935899833434653443199987499915997755893532677886998258677896-1-
Q 000869          333 SIHELLEGLECPQLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-A-  410 (1247)
Q Consensus       333 ~i~~~~~~~~~~~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~-~-  410 (1247)
                      .|...+...+...++.|++++|.+.   .++ ..+..+++|++|++++|.+..++ .+..+++|++|++++|.+..+ + 
T Consensus         7 ~i~~~~~~~n~~~lr~L~L~~n~I~---~i~-~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~   81 (162)
T d1a9na_           7 LIEQAAQYTNAVRDRELDLRGYKIP---VIE-NLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNRICRIGEG   81 (162)
T ss_dssp             HHHTSCEEECTTSCEEEECTTSCCC---SCC-CGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSCCCEECSC
T ss_pred             HHHHHHHCCCCCCCCEEECCCCCCC---CCC-CCCCCCCCCCEEECCCCCCCCCC-CCCCCCCHHHHHCCCCCCCCCCCC
T ss_conf             9961175168574848978899788---657-62004145998989799787647-744576130643102134577763


Q ss_pred             CCCCCCCCCEEECCCCCCCCCCH--HHCCCCCCCEEECCCCCCCCCCC---HHHHCCCCCCCEEEE
Q ss_conf             22588878688752788976753--21388878688342777786439---123229999879990
Q 000869          411 IIGKLKNLEILSFSGSGIVKLPE--ELGQLTKLRHLDLSNCFKLKVIA---PNVISSLIRLEELYM  471 (1247)
Q Consensus       411 ~~~~L~~L~~L~L~~~~i~~lp~--~i~~L~~L~~L~L~~~~~l~~~~---~~~l~~L~~L~~L~l  471 (1247)
                      .+..+++|++|++++|.+..++.  .+..+++|++|++++| .+...+   +..+..+++|+.|+.
T Consensus        82 ~~~~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N-~i~~~~~~r~~~i~~lp~L~~LD~  146 (162)
T d1a9na_          82 LDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN-PVTNKKHYRLYVIYKVPQVRVLDF  146 (162)
T ss_dssp             HHHHCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS-GGGGSTTHHHHHHHHCTTCSEETT
T ss_pred             CCCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCHHHCCCC-CCCCCCCHHHHHHHHCCCCCEECC
T ss_conf             22334534434203000166542110013653206640799-634561069999987899583379

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.62  E-value=3.6e-15  Score=96.63  Aligned_cols=122  Identities=14%  Similarity=0.166  Sum_probs=61.6

Q ss_pred             EEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCC-C-CCCCCCCCCCCEEECCCCCCCCC--CCCCCCCCCCEEEC
Q ss_conf             99935899833434653443199987499915997755-8-93532677886998258677896--12258887868875
Q 000869          348 FLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFS-L-PPSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSF  423 (1247)
Q Consensus       348 ~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~-l-p~~i~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L  423 (1247)
                      +++++++.+.   .+|.+++   .++++|+|++|.++. + +..|..+.+|+.|+++++.+..+  ..+..+.+|++|++
T Consensus        12 ~v~Cs~~~L~---~iP~~lp---~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~L   85 (192)
T d1w8aa_          12 TVDCTGRGLK---EIPRDIP---LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQL   85 (192)
T ss_dssp             EEECTTSCCS---SCCSCCC---TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEEC
T ss_pred             EEEEECCCCC---CCCCCCC---CCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEE
T ss_conf             9997089967---0298989---787889848987755302002578762721301363221212122211222210100


Q ss_pred             CCCCCCCCCH-HHCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEEECCCC
Q ss_conf             2788976753-2138887868834277778643912322999987999024744
Q 000869          424 SGSGIVKLPE-ELGQLTKLRHLDLSNCFKLKVIAPNVISSLIRLEELYMSNCFV  476 (1247)
Q Consensus       424 ~~~~i~~lp~-~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L~~L~~L~l~~~~~  476 (1247)
                      ++|.+..+|. .|.++++|++|+|++| .++.++++.+..+.+|++|++.++.+
T Consensus        86 s~N~l~~l~~~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~~L~~l~L~~N~~  138 (192)
T d1w8aa_          86 GENKIKEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLNSLTSLNLASNPF  138 (192)
T ss_dssp             CSCCCCEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCTTCCEEECTTCCB
T ss_pred             CCCCCCCCCHHHHHCCCCCCCCCCCCC-CCCCCCHHHHCCCCCCCCCCCCCCCC
T ss_conf             355344349799807974655245774-53535977856875334200036443

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.60  E-value=7.4e-15  Score=94.88  Aligned_cols=98  Identities=17%  Similarity=0.238  Sum_probs=51.6

Q ss_pred             CEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             49993589983343465344319998749991599775589353267788699825867789612258887868875278
Q 000869          347 EFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGS  426 (1247)
Q Consensus       347 ~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~  426 (1247)
                      |+|++++|.+.   .++.  +..+++|++|++++|.++.+|+.+..+.+|++|++++|.++.++.+..+++|++|++++|
T Consensus         1 R~L~Ls~n~l~---~l~~--l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~N   75 (124)
T d1dcea3           1 RVLHLAHKDLT---VLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNN   75 (124)
T ss_dssp             SEEECTTSCCS---SCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSS
T ss_pred             CEEECCCCCCC---CCCC--CCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCC
T ss_conf             98986899898---8710--105898898979787168652156554313545324321123574123355576888898


Q ss_pred             CCCCCC--HHHCCCCCCCEEECCCC
Q ss_conf             897675--32138887868834277
Q 000869          427 GIVKLP--EELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       427 ~i~~lp--~~i~~L~~L~~L~L~~~  449 (1247)
                      .+..+|  ..+..+++|++|++++|
T Consensus        76 ~i~~~~~~~~l~~~~~L~~L~l~~N  100 (124)
T d1dcea3          76 RLQQSAAIQPLVSCPRLVLLNLQGN  100 (124)
T ss_dssp             CCCSSSTTGGGGGCTTCCEEECTTS
T ss_pred             CCCCCCCCHHHCCCCCCCEEECCCC
T ss_conf             6588888256537999999989799

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.60  E-value=6.3e-15  Score=95.28  Aligned_cols=101  Identities=21%  Similarity=0.339  Sum_probs=47.3

Q ss_pred             CEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCC-C--CCCCCCCCCCEEECCCCCCCCCC-HHHCCCCCCCEEECCCC
Q ss_conf             49991599775589353267788699825867789-6--12258887868875278897675-32138887868834277
Q 000869          374 KVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGD-V--AIIGKLKNLEILSFSGSGIVKLP-EELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       374 r~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~-~--~~~~~L~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~  449 (1247)
                      ++++.+++.++.+|..+.  .++++|+|++|.+.. +  ..|..+.+|++|+++++.+..++ ..+..+++|++|++++|
T Consensus        11 ~~v~Cs~~~L~~iP~~lp--~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N   88 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDIP--LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN   88 (192)
T ss_dssp             TEEECTTSCCSSCCSCCC--TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC
T ss_pred             CEEEEECCCCCCCCCCCC--CCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCC
T ss_conf             999970899670298989--787889848987755302002578762721301363221212122211222210100355


Q ss_pred             CCCCCCCHHHHCCCCCCCEEEEECCCCC
Q ss_conf             7786439123229999879990247444
Q 000869          450 FKLKVIAPNVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       450 ~~l~~~~~~~l~~L~~L~~L~l~~~~~~  477 (1247)
                       .+..+++..|.++.+|++|++++|.+.
T Consensus        89 -~l~~l~~~~F~~l~~L~~L~L~~N~l~  115 (192)
T d1w8aa_          89 -KIKEISNKMFLGLHQLKTLNLYDNQIS  115 (192)
T ss_dssp             -CCCEECSSSSTTCTTCCEEECCSSCCC
T ss_pred             -CCCCCCHHHHHCCCCCCCCCCCCCCCC
T ss_conf             -344349799807974655245774535

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=1.3e-16  Score=104.57  Aligned_cols=56  Identities=16%  Similarity=0.221  Sum_probs=21.7

Q ss_pred             CCEEECCCCCCCC--CCCCCCCCCCCCEEECCCCCCCCC------CCCCCCCCCCEEECCCCCC
Q ss_conf             7499915997755--893532677886998258677896------1225888786887527889
Q 000869          373 LKVVDFCRMQFFS--LPPSIDHLLNLQTLCLDQCILGDV------AIIGKLKNLEILSFSGSGI  428 (1247)
Q Consensus       373 Lr~L~L~~~~~~~--lp~~i~~l~~L~~L~L~~~~l~~~------~~~~~L~~L~~L~L~~~~i  428 (1247)
                      |+.||++++.+..  +..-+..++++++|+|++|.++..      ..+..+++|++||+++|.|
T Consensus         4 l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i   67 (460)
T d1z7xw1           4 IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNEL   67 (460)
T ss_dssp             EEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCC
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCC
T ss_conf             7779820895886899999976779999982899998899999999985399988897959859

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.56  E-value=2.4e-14  Score=92.07  Aligned_cols=101  Identities=23%  Similarity=0.293  Sum_probs=73.8

Q ss_pred             CEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCC
Q ss_conf             499915997755893532677886998258677896-1225888786887527889767532138887868834277778
Q 000869          374 KVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDV-AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKL  452 (1247)
Q Consensus       374 r~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~-~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l  452 (1247)
                      |+|++++|.++.++ .+..+.+|++|++++|.++.+ +.++.+++|++|++++|.++.+| +++.+++|++|++++| .+
T Consensus         1 R~L~Ls~n~l~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N-~i   77 (124)
T d1dcea3           1 RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNN-RL   77 (124)
T ss_dssp             SEEECTTSCCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSS-CC
T ss_pred             CEEECCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCCCCCEEECCCC-CC
T ss_conf             98986899898871-010589889897978716865215655431354532432112357-4123355576888898-65


Q ss_pred             CCCCH-HHHCCCCCCCEEEEECCCCC
Q ss_conf             64391-23229999879990247444
Q 000869          453 KVIAP-NVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       453 ~~~~~-~~l~~L~~L~~L~l~~~~~~  477 (1247)
                      +.++. ..+..+++|+.|++.+|.+.
T Consensus        78 ~~~~~~~~l~~~~~L~~L~l~~N~i~  103 (124)
T d1dcea3          78 QQSAAIQPLVSCPRLVLLNLQGNSLC  103 (124)
T ss_dssp             CSSSTTGGGGGCTTCCEEECTTSGGG
T ss_pred             CCCCCCHHHCCCCCCCEEECCCCCCC
T ss_conf             88888256537999999989799688

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=2.9e-15  Score=97.11  Aligned_cols=103  Identities=19%  Similarity=0.205  Sum_probs=54.5

Q ss_pred             CCCEEECCCCCCCCCCCCCHHHHCCCCCCCEEECCCCCCC-----CCCCCCCCCCCCCEEECCCCCCCCC------CCCC
Q ss_conf             8449993589983343465344319998749991599775-----5893532677886998258677896------1225
Q 000869          345 QLEFLYMDSNGSSVEINVPEKFFTGMKKLKVVDFCRMQFF-----SLPPSIDHLLNLQTLCLDQCILGDV------AIIG  413 (1247)
Q Consensus       345 ~L~~L~l~~~~~~~~~~l~~~~~~~l~~Lr~L~L~~~~~~-----~lp~~i~~l~~L~~L~L~~~~l~~~------~~~~  413 (1247)
                      +|++|+++++.+....  -...+..++++++|+|++|.++     .+...+..+++|+.|+|++|.+...      ..+.
T Consensus         3 ~l~~ld~~~~~i~~~~--~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~   80 (460)
T d1z7xw1           3 DIQSLDIQCEELSDAR--WAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQ   80 (460)
T ss_dssp             EEEEEEEESCCCCHHH--HHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCCHHH--HHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHH
T ss_conf             8777982089588689--99999767799999828999988999999999853999888979598597289999999984


Q ss_pred             -CCCCCCEEECCCCCCCC-----CCHHHCCCCCCCEEECCCC
Q ss_conf             -88878688752788976-----7532138887868834277
Q 000869          414 -KLKNLEILSFSGSGIVK-----LPEELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       414 -~L~~L~~L~L~~~~i~~-----lp~~i~~L~~L~~L~L~~~  449 (1247)
                       ...+|++|+++++.++.     ++..+..+++|++|++++|
T Consensus        81 ~~~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          81 TPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             STTCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCC
T ss_conf             378877887788877543221012110000343200244433

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.42  E-value=3.4e-15  Score=96.72  Aligned_cols=110  Identities=22%  Similarity=0.264  Sum_probs=70.8

Q ss_pred             HHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCEEECCCCCCCCCCHHHCCCCCCCE
Q ss_conf             44319998749991599775589353267788699825867789612-25888786887527889767532138887868
Q 000869          365 KFFTGMKKLKVVDFCRMQFFSLPPSIDHLLNLQTLCLDQCILGDVAI-IGKLKNLEILSFSGSGIVKLPEELGQLTKLRH  443 (1247)
Q Consensus       365 ~~~~~l~~Lr~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~~l~~~~~-~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~  443 (1247)
                      ..+..+++|++|++++|.+..++ .+..+++|++|++++|.+..++. +..+.+|++|++++|.++.++ .+..+++|++
T Consensus        42 ~sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~  119 (198)
T d1m9la_          42 ATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRV  119 (198)
T ss_dssp             HHHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSE
T ss_pred             HHHHCCCCCCEEECCCCCCCCCC-CCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCC
T ss_conf             67762604615199446899864-424782535734135343210000332212333333332222222-2222223411


Q ss_pred             EECCCCCCCCCCCH-HHHCCCCCCCEEEEECCCCC
Q ss_conf             83427777864391-23229999879990247444
Q 000869          444 LDLSNCFKLKVIAP-NVISSLIRLEELYMSNCFVE  477 (1247)
Q Consensus       444 L~L~~~~~l~~~~~-~~l~~L~~L~~L~l~~~~~~  477 (1247)
                      |++++| .++.++. ..+..+++|+.|++.+|.+.
T Consensus       120 L~L~~N-~i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_         120 LYMSNN-KITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             EEESEE-ECCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             CCCCCC-HHCCCCCCCCCCCCCCCCEEECCCCCCC
T ss_conf             123410-2125542212367776302342798434

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=99.42  E-value=6.3e-16  Score=100.82  Aligned_cols=113  Identities=23%  Similarity=0.277  Sum_probs=54.3

Q ss_pred             CCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCHHHHCCC
Q ss_conf             55893532677886998258677896122588878688752788976753213888786883427777864391232299
Q 000869          384 FSLPPSIDHLLNLQTLCLDQCILGDVAIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRHLDLSNCFKLKVIAPNVISSL  463 (1247)
Q Consensus       384 ~~lp~~i~~l~~L~~L~L~~~~l~~~~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~l~~~~~~~l~~L  463 (1247)
                      ..++.++..+.+|++|+|++|.++.++.+..+++|++|++++|.++.+|..+..+++|++|++++| .++.++  .+..+
T Consensus        38 ~~l~~sl~~L~~L~~L~Ls~n~I~~i~~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~--~~~~l  114 (198)
T d1m9la_          38 EKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLS--GIEKL  114 (198)
T ss_dssp             CCCHHHHHHTTTCCEEECSEEEESCCCCHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEE-ECCCHH--HHHHH
T ss_pred             HHHHHHHHCCCCCCEEECCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCC--CCCCC
T ss_conf             002467762604615199446899864424782535734135343210000332212333333332-222222--22222


Q ss_pred             CCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEC
Q ss_conf             9987999024744433499995333456200179999869997614
Q 000869          464 IRLEELYMSNCFVEWEDEGPNSETINSRLDELMHLPRLTTLEVHVK  509 (1247)
Q Consensus       464 ~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~  509 (1247)
                      ++|+.|++++|.+..          -..+..+..+++|+.|++++|
T Consensus       115 ~~L~~L~L~~N~i~~----------~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_         115 VNLRVLYMSNNKITN----------WGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             HHSSEEEESEEECCC----------HHHHHHHTTTTTCSEEEECSS
T ss_pred             CCCCCCCCCCCHHCC----------CCCCCCCCCCCCCCEEECCCC
T ss_conf             234111234102125----------542212367776302342798

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.19  E-value=1.1e-10  Score=71.76  Aligned_cols=98  Identities=20%  Similarity=0.213  Sum_probs=44.2

Q ss_pred             EEECCCCCCCCCCCCCCCCCCCCEEECCCC-CCCCC--CCCCCCCCCCEEECCCCCCCCCC-HHHCCCCCCCEEECCCCC
Q ss_conf             999159977558935326778869982586-77896--12258887868875278897675-321388878688342777
Q 000869          375 VVDFCRMQFFSLPPSIDHLLNLQTLCLDQC-ILGDV--AIIGKLKNLEILSFSGSGIVKLP-EELGQLTKLRHLDLSNCF  450 (1247)
Q Consensus       375 ~L~L~~~~~~~lp~~i~~l~~L~~L~L~~~-~l~~~--~~~~~L~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~  450 (1247)
                      .++.+++.....|..+..+++|+.|.+.++ .++.+  ..|..+.+|+.|++++|.|+.++ ..|..+++|++|+|++| 
T Consensus        12 ~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N-   90 (156)
T d2ifga3          12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN-   90 (156)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS-
T ss_pred             EEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCCC-
T ss_conf             6985289976586002576565743168986644369212256666672162021247742011124554333322678-


Q ss_pred             CCCCCCHHHHCCCCCCCEEEEECC
Q ss_conf             786439123229999879990247
Q 000869          451 KLKVIAPNVISSLIRLEELYMSNC  474 (1247)
Q Consensus       451 ~l~~~~~~~l~~L~~L~~L~l~~~  474 (1247)
                      .++.+++..+..+ +|++|++.+|
T Consensus        91 ~l~~l~~~~~~~~-~l~~L~L~~N  113 (156)
T d2ifga3          91 ALESLSWKTVQGL-SLQELVLSGN  113 (156)
T ss_dssp             CCSCCCSTTTCSC-CCCEEECCSS
T ss_pred             CCCCCCHHHHCCC-CCCCCCCCCC
T ss_conf             7851574563353-2124335798

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=1.8e-10  Score=70.59  Aligned_cols=82  Identities=21%  Similarity=0.113  Sum_probs=40.9

Q ss_pred             CCCCCCCEEECCCC-CCCCCC-CCCCCCCCCCEEECCCCCCCCC--CCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCE
Q ss_conf             19998749991599-775589-3532677886998258677896--1225888786887527889767532138887868
Q 000869          368 TGMKKLKVVDFCRM-QFFSLP-PSIDHLLNLQTLCLDQCILGDV--AIIGKLKNLEILSFSGSGIVKLPEELGQLTKLRH  443 (1247)
Q Consensus       368 ~~l~~Lr~L~L~~~-~~~~lp-~~i~~l~~L~~L~L~~~~l~~~--~~~~~L~~L~~L~L~~~~i~~lp~~i~~L~~L~~  443 (1247)
                      ..+++|+.|++.++ .++.++ .+|..+.+|+.|++++|.++.+  ..|..+++|++|++++|.++.+|.++....+|++
T Consensus        28 ~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~  107 (156)
T d2ifga3          28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQE  107 (156)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCE
T ss_pred             CCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCHHHHCCCCCCC
T ss_conf             57656574316898664436921225666667216202124774201112455433332267878515745633532124


Q ss_pred             EECCCC
Q ss_conf             834277
Q 000869          444 LDLSNC  449 (1247)
Q Consensus       444 L~L~~~  449 (1247)
                      |++++|
T Consensus       108 L~L~~N  113 (156)
T d2ifga3         108 LVLSGN  113 (156)
T ss_dssp             EECCSS
T ss_pred             CCCCCC
T ss_conf             335798

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.15  E-value=1.5e-11  Score=76.66  Aligned_cols=186  Identities=18%  Similarity=0.217  Sum_probs=0.0

Q ss_pred             CCCEEEECCCCCCCC-----CCCCC-CCCCCCEEECCCCCCCCCCCCCHHHH-------------CCCCCCCEEECCCCC
Q ss_conf             343389824786001-----23758-99984499935899833434653443-------------199987499915997
Q 000869          322 RKCYAISIRDSSIHE-----LLEGL-ECPQLEFLYMDSNGSSVEINVPEKFF-------------TGMKKLKVVDFCRMQ  382 (1247)
Q Consensus       322 ~~~~~l~l~~~~i~~-----~~~~~-~~~~L~~L~l~~~~~~~~~~l~~~~~-------------~~l~~Lr~L~L~~~~  382 (1247)
                      ++++.+++.+|.+..     +.... ..++|+.|.+++|.+.   ......+             ...+.|+.++++++.
T Consensus        93 ~~L~~L~L~~n~i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~---~~~~~~l~~~l~~~~~~~~~~~~~~L~~l~l~~n~  169 (344)
T d2ca6a1          93 PKLHTVRLSDNAFGPTAQEPLIDFLSKHTPLEHLYLHNNGLG---PQAGAKIARALQELAVNKKAKNAPPLRSIICGRNR  169 (344)
T ss_dssp             TTCCEEECCSCCCCTTTHHHHHHHHHHCTTCCEEECCSSCCH---HHHHHHHHHHHHHHHHHHHHHTCCCCCEEECCSSC
T ss_pred             CCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCHHEECCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCC
T ss_conf             775633000013455433310111002343210000024666---65431111212222110001467642111013650


Q ss_pred             CC-----CCCCCCCCCCCCCEEECCCCCCCC------C-CCCCCCCCCCEEECCCCCCC-----CCCHHHCCCCCCCEEE
Q ss_conf             75-----589353267788699825867789------6-12258887868875278897-----6753213888786883
Q 000869          383 FF-----SLPPSIDHLLNLQTLCLDQCILGD------V-AIIGKLKNLEILSFSGSGIV-----KLPEELGQLTKLRHLD  445 (1247)
Q Consensus       383 ~~-----~lp~~i~~l~~L~~L~L~~~~l~~------~-~~~~~L~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~  445 (1247)
                      +.     .+...+.....|+.|++++|.+..      + ..+..+++|++|++++|.+.     .+...+...++|++|+
T Consensus       170 i~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~~~~L~~L~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~  249 (344)
T d2ca6a1         170 LENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELG  249 (344)
T ss_dssp             CTGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGGCTTCCEEECCSSCCHHHHHHHHHHHGGGCTTCCEEE
T ss_pred             CCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHH
T ss_conf             13554332211112333213354333222222232002433211012112223333222222223444332322111103


Q ss_pred             CCCCCCCCCCCHHHH------CCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCEEEEEECCCCCCCCHH
Q ss_conf             427777864391232------299998799902474443349999533345620017-9999869997614898778011
Q 000869          446 LSNCFKLKVIAPNVI------SSLIRLEELYMSNCFVEWEDEGPNSETINSRLDELM-HLPRLTTLEVHVKNDNILPEGF  518 (1247)
Q Consensus       446 L~~~~~l~~~~~~~l------~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~l~-~l~~L~~L~l~~~~~~~~~~~~  518 (1247)
                      +++| .+.......+      .....|++|++++|.+.       .+........+. +.++|+.|++++|....-....
T Consensus       250 Ls~n-~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~-------~~~~~~l~~~l~~~~~~L~~L~l~~N~~~~~~~~~  321 (344)
T d2ca6a1         250 LNDC-LLSARGAAAVVDAFSKLENIGLQTLRLQYNEIE-------LDAVRTLKTVIDEKMPDLLFLELNGNRFSEEDDVV  321 (344)
T ss_dssp             CTTC-CCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCB-------HHHHHHHHHHHHHHCTTCCEEECTTSBSCTTSHHH
T ss_pred             HHCC-CCCCHHHHHHHHHHHHCCCCCCCEEECCCCCCC-------HHHHHHHHHHHHCCCCCCCEEECCCCCCCCCCHHH
T ss_conf             0047-567156678887763156888898989898698-------08999999999703899998978798089862599

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=98.91  E-value=3e-09  Score=63.87  Aligned_cols=168  Identities=14%  Similarity=0.214  Sum_probs=89.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC-----CCHHHHHHHHHHHHC--------------CCC---------
Q ss_conf             9986199999999999622139984999990775-----499999999999939--------------873---------
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-----IDIKKIQQAIAEKLG--------------LVL---------   52 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-----~~~~~~~~~i~~~l~--------------~~~---------   52 (1247)
                      .+|+|||+|+++++++..     ....|+++...     .....+...+.....              ...         
T Consensus        37 ~~G~GKTsLl~~~~~~~~-----~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (283)
T d2fnaa2          37 LRRTGKSSIIKIGINELN-----LPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEI  111 (283)
T ss_dssp             STTSSHHHHHHHHHHHHT-----CCEEEEEGGGGTTCSCCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSE
T ss_pred             CCCCCHHHHHHHHHHHCC-----CCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             999829999999999779-----986999721453333243999999999975445555577777777530334344322


Q ss_pred             C---CCCHHHHHHHHHHHHH--CCCEEEEEEECCCCCCC------CHHHCCCCCCCCCCCEEEEECCCHHHHH-HC----
Q ss_conf             1---2244799999999994--59919999949999424------0000167888999949999159814554-13----
Q 000869           53 Q---EETESSRASRLHEQLK--REEKILIILDNIWKRVD------LETVGIPFGDDHRGCKLLLTARDRTVLF-SM----  116 (1247)
Q Consensus        53 ~---~~~~~~~~~~~~~~l~--~~~~~LlvlD~v~~~~~------~~~l~~~~~~~~~~~~iliTtR~~~~~~-~~----  116 (1247)
                      .   ..........+.+.+.  .+++.++|+|+++....      ...+... .........+++.+...... ..    
T Consensus       112 ~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~i~~~~~~~~~~~~~~~~~  190 (283)
T d2fnaa2         112 KFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYA-YDNLKRIKFIMSGSEMGLLYDYLRVED  190 (283)
T ss_dssp             EEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHH-HHHCTTEEEEEEESSHHHHHHHTTTTC
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCHHHHHHHHHHH-HHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             2341001345899999998763155554566405541333269999999999-875311344203565067899997542


Q ss_pred             -------CCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCC
Q ss_conf             -------9962398389998999999999809999983548999999999089846999999999649
Q 000869          117 -------GSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEVAKACKGLPIALTTIARALRNK  177 (1247)
Q Consensus       117 -------~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~~~~l~~~  177 (1247)
                             .....+.|++|+.+++.+++.+.........   +.+.++++.++|+|..+..++..+...
T Consensus       191 ~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~---~~~~~i~~~~~G~P~~L~~~~~~~~~~  255 (283)
T d2fnaa2         191 PESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDF---KDYEVVYEKIGGIPGWLTYFGFIYLDN  255 (283)
T ss_dssp             TTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCC---CCHHHHHHHHCSCHHHHHHHHHHHHHH
T ss_pred             HCCHHCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCH---HHHHHHHHHHCCCHHHHHHHHHHHHHC
T ss_conf             10001034105886288788999999996654569999---999999999699799999999999805

>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=98.52  E-value=2e-06  Score=48.24  Aligned_cols=152  Identities=13%  Similarity=0.175  Sum_probs=86.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCC-------------------CEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             99861999999999996221399-------------------84999990775499999999999939873122447999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLF-------------------DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRA   61 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f-------------------~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~   61 (1247)
                      ..|+|||++|+.+++........                   ..++.++.++...+..+ +.+.+.+....         
T Consensus        42 p~G~GKtt~a~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~i~~i-r~~~~~~~~~~---------  111 (239)
T d1njfa_          42 TRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDT-RDLLDNVQYAP---------  111 (239)
T ss_dssp             STTSSHHHHHHHHHHHHHCTTCSCSSCCSCSHHHHHHHHTCCTTEEEEETTCSSSHHHH-HHHHHSCCCSC---------
T ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHCCCCCEEEEECCHHCCCHHHH-HHHHHHHHHCC---------
T ss_conf             99875899999999984685566667555424799997479870799611200789999-99999997465---------


Q ss_pred             HHHHHHHHCCCEEEEEEECCCCC--CCCHHHCCCCCCCCCCCEEEEECCCHHH-HH-HCCCCCEEECCCCCHHHHHHHHH
Q ss_conf             99999994599199999499994--2400001678889999499991598145-54-13996239838999899999999
Q 000869           62 SRLHEQLKREEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRTV-LF-SMGSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        62 ~~~~~~l~~~~~~LlvlD~v~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~~-~~-~~~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                             ..++..++|+|+++..  +...+|...+-.....+++|.+|.+..- .. -......+.+++++.++-.+.+.
T Consensus       112 -------~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~  184 (239)
T d1njfa_         112 -------ARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLE  184 (239)
T ss_dssp             -------SSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHH
T ss_pred             -------CCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf             -------2599879999781108999999999998568988699997388563676576121022224676787666887


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHCCCCCH-HHHHH
Q ss_conf             9809999983548999999999089846-99999
Q 000869          138 LMAGDDVENRELKSTATEVAKACKGLPI-ALTTI  170 (1247)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-ai~~~  170 (1247)
                      ..+...... -..+.+..|++.++|.+- |+..+
T Consensus       185 ~i~~~e~~~-~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         185 HILNEEHIA-HEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HHHHHHTCC-BCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHCCC-CCHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             877643147-899999999997699799999999

>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=98.50  E-value=2.7e-07  Score=53.09  Aligned_cols=148  Identities=16%  Similarity=0.094  Sum_probs=87.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      ..|+||||+|+.++++.....+...+.-++.....+..............               .....+....+|+|+
T Consensus        43 p~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~~kiiiiDe  107 (227)
T d1sxjc2          43 PPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIKDFAST---------------RQIFSKGFKLIILDE  107 (227)
T ss_dssp             SSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHHHHHHB---------------CCSSSCSCEEEEETT
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEECCHHHCCCC---------------CCCCCCCEEEEEEEC
T ss_conf             99877558999999985167776415773155568754321000101110---------------002577718999966


Q ss_pred             CCCC--CCCHHHCCCCCCCCCCCEEEEECCCHHHHH--HCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             9994--240000167888999949999159814554--139962398389998999999999809999983548999999
Q 000869           81 IWKR--VDLETVGIPFGDDHRGCKLLLTARDRTVLF--SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEV  156 (1247)
Q Consensus        81 v~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~~~~--~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i  156 (1247)
                      ++..  ....++...+......++++++|....-..  .......+++.+++.++-.+.+.+.+...... -..+....|
T Consensus       108 ~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~i~-i~~~~l~~i  186 (227)
T d1sxjc2         108 ADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLK-LSPNAEKAL  186 (227)
T ss_dssp             GGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTTCC-BCHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC-CCHHHHHHH
T ss_conf             3200023789999886311200232012670877599999887540123565200011021221111245-898999999


Q ss_pred             HHHCCCCC
Q ss_conf             99908984
Q 000869          157 AKACKGLP  164 (1247)
Q Consensus       157 ~~~~~g~P  164 (1247)
                      ++.++|-.
T Consensus       187 ~~~s~Gd~  194 (227)
T d1sxjc2         187 IELSNGDM  194 (227)
T ss_dssp             HHHHTTCH
T ss_pred             HHHCCCCH
T ss_conf             99849969

>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=98.42  E-value=4.4e-07  Score=51.87  Aligned_cols=150  Identities=15%  Similarity=0.099  Sum_probs=88.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|+||||+|+.+++.......-..++.++.++......+...+.........              ...++..++|+|+
T Consensus        44 p~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~~~~~~~~~--------------~~~~~~kviiiDe  109 (224)
T d1sxjb2          44 MPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIKHFAQKKLH--------------LPPGKHKIVILDE  109 (224)
T ss_dssp             STTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHHHHHHBCCC--------------CCTTCCEEEEEES
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEHHHHHHHHHHHHCC--------------CCCCCEEEEEEEC
T ss_conf             99987054699999997256643221111134557852116678878876224--------------7776359999824


Q ss_pred             CCCCC--CCHHHCCCCCCCCCCCEEEEECCCH-HHHH-HCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             99942--4000016788899994999915981-4554-139962398389998999999999809999983548999999
Q 000869           81 IWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEV  156 (1247)
Q Consensus        81 v~~~~--~~~~l~~~~~~~~~~~~iliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i  156 (1247)
                      ++...  ...++..........+++++++.+. .+.. -......+++++++.++-...+...+...... -..+....|
T Consensus       110 ~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~~i~~~~~~~~~i~~~l~~i~~~e~~~-i~~~~l~~I  188 (224)
T d1sxjb2         110 ADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVK-YTNDGLEAI  188 (224)
T ss_dssp             GGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCC-BCHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCC-CCHHHHHHH
T ss_conf             4323215778775201123333366531474302106788777776531332245678887777740467-899999999


Q ss_pred             HHHCCCCCH
Q ss_conf             999089846
Q 000869          157 AKACKGLPI  165 (1247)
Q Consensus       157 ~~~~~g~Pl  165 (1247)
                      ++.++|.+-
T Consensus       189 ~~~s~Gd~R  197 (224)
T d1sxjb2         189 IFTAEGDMR  197 (224)
T ss_dssp             HHHHTTCHH
T ss_pred             HHHCCCCHH
T ss_conf             998699699

>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=98.36  E-value=1.2e-06  Score=49.55  Aligned_cols=95  Identities=8%  Similarity=0.049  Sum_probs=57.1

Q ss_pred             CCEEEEEEECCCCC--CCCHHHCCCCCCCCCCCEEEEECCCHH-HHH-HCCCCCEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf             99199999499994--240000167888999949999159814-554-13996239838999899999999980999998
Q 000869           71 EEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVEN  146 (1247)
Q Consensus        71 ~~~~LlvlD~v~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~  146 (1247)
                      +...++|+|+++..  +....+...+-.....+++|.||.+.. +.. .......+++.+++.++..+.+...+......
T Consensus       130 ~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~  209 (252)
T d1sxje2         130 HRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQ  209 (252)
T ss_dssp             -CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCE
T ss_pred             CCCEEEEECCCCCCCCCCCHHHHCCCCCCCCCCCCEEEECCCCCHHHHHHCCHHEEEECCCCHHHHHHHHHHHHHHCCCC
T ss_conf             87249994243334543111221002213566430001021110025442100024303533046899999999983999


Q ss_pred             HHHHHHHHHHHHHCCCCCH
Q ss_conf             3548999999999089846
Q 000869          147 RELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       147 ~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      ...++....|++.+.|.+-
T Consensus       210 ~~~~~~l~~i~~~s~Gd~R  228 (252)
T d1sxje2         210 LETKDILKRIAQASNGNLR  228 (252)
T ss_dssp             ECCSHHHHHHHHHHTTCHH
T ss_pred             CCCHHHHHHHHHHCCCCHH
T ss_conf             8969999999998699499

>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=98.35  E-value=3e-05  Score=41.73  Aligned_cols=139  Identities=14%  Similarity=0.194  Sum_probs=85.5

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCC--CHHHHHHHHHHHHHC-CCEEEEE
Q ss_conf             9986199999999999622139984999990775499999999999939873122--447999999999945-9919999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEE--TESSRASRLHEQLKR-EEKILII   77 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~~~~~l~~-~~~~Llv   77 (1247)
                      .+|+|||++|+.+++...... ...++|+..............+....+......  ........+...... ......+
T Consensus        51 ppGtGKT~l~~~l~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  129 (276)
T d1fnna2          51 RPGTGKTVTLRKLWELYKDKT-TARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLV  129 (276)
T ss_dssp             CTTSSHHHHHHHHHHHHTTSC-CCEEEEEETTTCCSHHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CCCCCHHHHHHHHHHHHHCCC-CCCEEEECCHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf             899989999999999975446-8857873230011246665456776433455532543578999999875206543320


Q ss_pred             EECCCCCCC-----CHHHCCCCCC-CCCCCEEEEECCCHHHHHHC-------CCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             949999424-----0000167888-99994999915981455413-------996239838999899999999980
Q 000869           78 LDNIWKRVD-----LETVGIPFGD-DHRGCKLLLTARDRTVLFSM-------GSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        78 lD~v~~~~~-----~~~l~~~~~~-~~~~~~iliTtR~~~~~~~~-------~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      +|.+++...     ...+...... ......++.++.........       .....+.+++++.++..+++.+.+
T Consensus       130 ~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         130 LDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             EETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHCCHHHHHHHCCHHCCCCCHHHHHHHHHHHHHH
T ss_conf             3688875354310688887404433565248862587645443113036655110110344123888999999999

>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=98.34  E-value=5.9e-06  Score=45.65  Aligned_cols=142  Identities=10%  Similarity=0.044  Sum_probs=83.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHCC-------------------CCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHH
Q ss_conf             998619999999999962213-------------------9984999990775499999999999939873122447999
Q 000869            1 MGGIGKTTLVKEVARKARKDK-------------------LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRA   61 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~-------------------~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~   61 (1247)
                      ..|+||||+|+.+++..-...                   ....++++...+..                  .....+.+
T Consensus        32 p~G~GKtt~a~~~a~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~------------------~~i~~~~i   93 (207)
T d1a5ta2          32 LPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQLMQAGTHPDYYTLAPEKGK------------------NTLGVDAV   93 (207)
T ss_dssp             CTTSCHHHHHHHHHHHHTCSSCBTTBCCSCSHHHHHHHHTCCTTEEEECCCTTC------------------SSBCHHHH
T ss_pred             CCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCHHHHHHCC------------------CCCCCCHH
T ss_conf             998759999999998210101232122334201556543034311012343134------------------53332114


Q ss_pred             HHHHHHHH----CCCEEEEEEECCCCC--CCCHHHCCCCCCCCCCCEEEEECCCHH-HHH-HCCCCCEEECCCCCHHHHH
Q ss_conf             99999994----599199999499994--240000167888999949999159814-554-1399623983899989999
Q 000869           62 SRLHEQLK----REEKILIILDNIWKR--VDLETVGIPFGDDHRGCKLLLTARDRT-VLF-SMGSEKNFLVDILKEEEAW  133 (1247)
Q Consensus        62 ~~~~~~l~----~~~~~LlvlD~v~~~--~~~~~l~~~~~~~~~~~~iliTtR~~~-~~~-~~~~~~~~~l~~l~~~ea~  133 (1247)
                      .++...+.    .+++.++|+|+++..  +...++...+-....+.++|.||++.. +.. -......+.+.+++.++..
T Consensus        94 r~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc~~i~~~~~~~~~~~  173 (207)
T d1a5ta2          94 REVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAV  173 (207)
T ss_dssp             HHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHH
T ss_pred             HHHHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHCCEEEEEECCCCCHHHHH
T ss_conf             67765321100357640477313442000014999999985011110455306865510320021578826899999999


Q ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCHH
Q ss_conf             999998099999835489999999990898469
Q 000869          134 RLFKLMAGDDVENRELKSTATEVAKACKGLPIA  166 (1247)
Q Consensus       134 ~l~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  166 (1247)
                      ..+.....-      ..+.+..+++..+|.|-.
T Consensus       174 ~~L~~~~~~------~~~~~~~i~~~s~Gs~r~  200 (207)
T d1a5ta2         174 TWLSREVTM------SQDALLAALRLSAGSPGA  200 (207)
T ss_dssp             HHHHHHCCC------CHHHHHHHHHHTTTCHHH
T ss_pred             HHHHHCCCC------CHHHHHHHHHHCCCCHHH
T ss_conf             999974899------999999999976999999

>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=98.31  E-value=7e-07  Score=50.78  Aligned_cols=148  Identities=14%  Similarity=0.105  Sum_probs=82.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      ..|+||||+|+.+++.......-..++-++++...+...+...+......               .........++++|+
T Consensus        53 p~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~~~~~~---------------~~~~~~~~~iilide  117 (231)
T d1iqpa2          53 PPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVKEFART---------------KPIGGASFKIIFLDE  117 (231)
T ss_dssp             CTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHHHHHHS---------------CCGGGCSCEEEEEET
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH---------------HHCCCCCCEEEEEHH
T ss_conf             99974879999999998731467771587567666634888888888751---------------001578722886143


Q ss_pred             CCCC--CCCHHHCCCCCCCCCCCEEEEECCCH-HHHH-HCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             9994--24000016788899994999915981-4554-139962398389998999999999809999983548999999
Q 000869           81 IWKR--VDLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATEV  156 (1247)
Q Consensus        81 v~~~--~~~~~l~~~~~~~~~~~~iliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~i  156 (1247)
                      ++..  .....+...+........+|.||... .+.. .......+.+.+.+.++..+.+...+..... .-..+....|
T Consensus       118 ~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~~~~~e~i-~i~~~~l~~I  196 (231)
T d1iqpa2         118 ADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGL-ELTEEGLQAI  196 (231)
T ss_dssp             GGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEEEECCCCCHHHHHHHHHHHHHTTTC-EECHHHHHHH
T ss_pred             HHHCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHCHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCC-CCCHHHHHHH
T ss_conf             443121478987641124776447886148766565768473121012334304677899888998399-9899999999


Q ss_pred             HHHCCCCC
Q ss_conf             99908984
Q 000869          157 AKACKGLP  164 (1247)
Q Consensus       157 ~~~~~g~P  164 (1247)
                      ++.++|-.
T Consensus       197 ~~~~~gdi  204 (231)
T d1iqpa2         197 LYIAEGDM  204 (231)
T ss_dssp             HHHHTTCH
T ss_pred             HHHCCCCH
T ss_conf             99839979

>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=98.27  E-value=4e-05  Score=41.06  Aligned_cols=126  Identities=12%  Similarity=0.127  Sum_probs=78.4

Q ss_pred             CCCCCHHHHHHHHHHHHHHCC-----CCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEE
Q ss_conf             998619999999999962213-----998499999077549999999999993987312244799999999994599199
Q 000869            1 MGGIGKTTLVKEVARKARKDK-----LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~-----~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~L   75 (1247)
                      .+|+|||+++..++++....+     ....+++++.+.-.             ..........++...+...+......+
T Consensus        47 ~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~li-------------ag~~~~g~~e~r~~~i~~~~~~~~~iI  113 (268)
T d1r6bx2          47 ESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL-------------AGTKYRGDFEKRFKALLKQLEQDTNSI  113 (268)
T ss_dssp             CTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC----------------CCCCCSSCHHHHHHHHHHHHSSSSCEE
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECHHH-------------CCCCCCHHHHHHHHHHHHHHHCCCCCE
T ss_conf             8988677999999999981784500035412786405675-------------067630058999999999861267846


Q ss_pred             EEEECCCCCC----------CCHHHCCCCCCCCCCCEEEEECCCHHHHHHC-------CCCCEEECCCCCHHHHHHHHHH
Q ss_conf             9994999942----------4000016788899994999915981455413-------9962398389998999999999
Q 000869           76 IILDNIWKRV----------DLETVGIPFGDDHRGCKLLLTARDRTVLFSM-------GSEKNFLVDILKEEEAWRLFKL  138 (1247)
Q Consensus        76 lvlD~v~~~~----------~~~~l~~~~~~~~~~~~iliTtR~~~~~~~~-------~~~~~~~l~~l~~~ea~~l~~~  138 (1247)
                      +++|++...-          +...+..++...+ .-++|.+|.........       +....+.+++.+.+++.+++..
T Consensus       114 lfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg-~i~vIgatT~eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~  192 (268)
T d1r6bx2         114 LFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG-KIRVIGSTTYQEFSNIFEKDRALARRFQKIDITEPSIEETVQIING  192 (268)
T ss_dssp             EEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC-CCEEEEEECHHHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHH
T ss_pred             EEECCHHHHHCCCCCCCCCCCHHHHHHHHHHCC-CCEEEEECCHHHHHHHHHHCHHHHHHHCCCCCCCCCHHHHHHHHHH
T ss_conf             884336988627777886411798764887479-8759995799999999861678886521003689899999999998


Q ss_pred             HH
Q ss_conf             80
Q 000869          139 MA  140 (1247)
Q Consensus       139 ~~  140 (1247)
                      ..
T Consensus       193 ~~  194 (268)
T d1r6bx2         193 LK  194 (268)
T ss_dssp             HH
T ss_pred             HH
T ss_conf             66

>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=98.23  E-value=2.4e-06  Score=47.79  Aligned_cols=163  Identities=12%  Similarity=0.111  Sum_probs=88.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHCC-CCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEE
Q ss_conf             998619999999999962213-9984999990775499999999999939873122447999999999945991999994
Q 000869            1 MGGIGKTTLVKEVARKARKDK-LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~-~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      .+|+||||+|+.++++..... .....+.++.+...........+............ ...   ... ......-.+|+|
T Consensus        41 p~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~---~~~-~~~~~~~viiiD  115 (237)
T d1sxjd2          41 PPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPS-KHD---LEN-YPCPPYKIIILD  115 (237)
T ss_dssp             STTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHHHHHHHSCCCCCC-TTH---HHH-SCCCSCEEEEET
T ss_pred             CCCCCHHHHHHHHHHHHCCCCCCCCCHHHEECCCCCCCHHHHHHHHHHHHHHHHHHH-HHH---HHH-CCCCCCEEEEEE
T ss_conf             999984999999999970976334321220021135606789999887654443246-787---761-356673699995


Q ss_pred             CCCCCC--CCHHHCCCCCCCCCCCEEEEECCCH-HHHH-HCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             999942--4000016788899994999915981-4554-13996239838999899999999980999998354899999
Q 000869           80 NIWKRV--DLETVGIPFGDDHRGCKLLLTARDR-TVLF-SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKSTATE  155 (1247)
Q Consensus        80 ~v~~~~--~~~~l~~~~~~~~~~~~iliTtR~~-~~~~-~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~~~~~  155 (1247)
                      +++...  ....+..........+++++|+... .+.. .......+++.+++.++..+.+...+..... .-..++.+.
T Consensus       116 e~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~~i~f~~~~~~~~~~~L~~i~~~e~i-~i~~~~l~~  194 (237)
T d1sxjd2         116 EADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFISEQENV-KCDDGVLER  194 (237)
T ss_dssp             TGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSEEEECCCCCHHHHHHHHHHHHHTTTC-CCCHHHHHH
T ss_pred             CCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCHHHHHHHHHHCC-CCCHHHHHH
T ss_conf             5133677778887630122223333212246642223311100011023333332110010114555267-578999999


Q ss_pred             HHHHCCCCC-HHHHH
Q ss_conf             999908984-69999
Q 000869          156 VAKACKGLP-IALTT  169 (1247)
Q Consensus       156 i~~~~~g~P-lai~~  169 (1247)
                      |++.++|-. -|+..
T Consensus       195 ia~~s~gd~R~ai~~  209 (237)
T d1sxjd2         195 ILDISAGDLRRGITL  209 (237)
T ss_dssp             HHHHTSSCHHHHHHH
T ss_pred             HHHHCCCCHHHHHHH
T ss_conf             999859989999999

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.22  E-value=2e-08  Score=59.34  Aligned_cols=41  Identities=17%  Similarity=0.272  Sum_probs=14.8

Q ss_pred             CCCCCCCEEECCCCCCCCCC---CCCCCCCCCCEEECCCCCCCC
Q ss_conf             19998749991599775589---353267788699825867789
Q 000869          368 TGMKKLKVVDFCRMQFFSLP---PSIDHLLNLQTLCLDQCILGD  408 (1247)
Q Consensus       368 ~~l~~Lr~L~L~~~~~~~lp---~~i~~l~~L~~L~L~~~~l~~  408 (1247)
                      ..++.|++|++++|.++.++   ..+..+++|++|++++|.++.
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~  105 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKS  105 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCC
T ss_pred             HHCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             74878788637776666773158898658856100043572134

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.16  E-value=2.5e-08  Score=58.76  Aligned_cols=59  Identities=29%  Similarity=0.300  Sum_probs=28.6

Q ss_pred             CCCCCCCEEECCCCCCCCCC----CCCCCCCCCEEECCCCCCCCCCH-HHCCCCCCCEEECCCC
Q ss_conf             26778869982586778961----22588878688752788976753-2138887868834277
Q 000869          391 DHLLNLQTLCLDQCILGDVA----IIGKLKNLEILSFSGSGIVKLPE-ELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       391 ~~l~~L~~L~L~~~~l~~~~----~~~~L~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~  449 (1247)
                      ..+++|++|+|++|.++.++    .+..+++|++|++++|.|+.++. ......+|+.|++++|
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~N  125 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGN  125 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTS
T ss_pred             HHCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEEECCCC
T ss_conf             7487878863777666677315889865885610004357213423442220331042664899

>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=98.13  E-value=1.6e-05  Score=43.30  Aligned_cols=148  Identities=11%  Similarity=0.121  Sum_probs=84.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|.|||++|+++++....     .++.++.+...              .... .........+.+......+++|++||
T Consensus        46 ppGtGKT~l~~ala~~~~~-----~~~~i~~~~l~--------------~~~~-g~~~~~l~~~f~~A~~~~p~il~iDe  105 (258)
T d1e32a2          46 PPGTGKTLIARAVANETGA-----FFFLINGPEIM--------------SKLA-GESESNLRKAFEEAEKNAPAIIFIDE  105 (258)
T ss_dssp             CTTSSHHHHHHHHHHHTTC-----EEEEECHHHHT--------------TSCT-THHHHHHHHHHHHHHHTCSEEEEESS
T ss_pred             CCCCCCHHHHHHHHHHHCC-----EEEEEECHHHC--------------CCCC-CCHHHHHHHHHHHHHHCCCEEEEEHH
T ss_conf             9988830899999987488-----37999730430--------------2545-61788889999999864994998521


Q ss_pred             CCCCCC-------------CHHHCCC--CCCCCCCCEEEEECCCHHHHH----HC-CCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             999424-------------0000167--888999949999159814554----13-996239838999899999999980
Q 000869           81 IWKRVD-------------LETVGIP--FGDDHRGCKLLLTARDRTVLF----SM-GSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        81 v~~~~~-------------~~~l~~~--~~~~~~~~~iliTtR~~~~~~----~~-~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      ++....             ...+...  ......+..|+.||..+....    +. +....++++..+.++..++|....
T Consensus       106 id~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l  185 (258)
T d1e32a2         106 LDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHT  185 (258)
T ss_dssp             GGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTT
T ss_pred             HHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHCCCCCCEEECCCCCHHHHHHHHHHHC
T ss_conf             11322578877770689998775001101234688117975799310252454246302323789999889998732204


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCHH-HHHH
Q ss_conf             99999835489999999990898469-9999
Q 000869          141 GDDVENRELKSTATEVAKACKGLPIA-LTTI  170 (1247)
Q Consensus       141 ~~~~~~~~~~~~~~~i~~~~~g~Pla-i~~~  170 (1247)
                      +......+  .....|++.+.|.--| |..+
T Consensus       186 ~~~~~~~~--~~~~~la~~t~G~s~adl~~l  214 (258)
T d1e32a2         186 KNMKLADD--VDLEQVANETHGHVGADLAAL  214 (258)
T ss_dssp             TTSCBCTT--CCHHHHHHHCTTCCHHHHHHH
T ss_pred             CCCCCCCC--CCHHHHHHCCCCCCHHHHHHH
T ss_conf             57633455--303444420667789999999

>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=98.13  E-value=9.9e-05  Score=38.87  Aligned_cols=160  Identities=18%  Similarity=0.131  Sum_probs=90.3

Q ss_pred             CCCCCHHHHHHHHHHHHHHC----CCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCC--CCHHHHHHHHHHHHH-CCCE
Q ss_conf             99861999999999996221----3998499999077549999999999993987312--244799999999994-5991
Q 000869            1 MGGIGKTTLVKEVARKARKD----KLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE--ETESSRASRLHEQLK-REEK   73 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~----~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~~~~l~-~~~~   73 (1247)
                      .+|+|||++++.++++....    .....+.+++.....+...........++.....  .........+..... .+..
T Consensus        54 ppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  133 (287)
T d1w5sa2          54 RVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHY  133 (287)
T ss_dssp             CCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCE
T ss_pred             CCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCC
T ss_conf             99989999999999998754155567841663033334650467888765304323334512788999999999854676


Q ss_pred             EEEEEECCCCCCC--------CHHH------CCCCCCCCCCCEEEEECCCHHHH-------H-HCCCCCEEECCCCCHHH
Q ss_conf             9999949999424--------0000------16788899994999915981455-------4-13996239838999899
Q 000869           74 ILIILDNIWKRVD--------LETV------GIPFGDDHRGCKLLLTARDRTVL-------F-SMGSEKNFLVDILKEEE  131 (1247)
Q Consensus        74 ~LlvlD~v~~~~~--------~~~l------~~~~~~~~~~~~iliTtR~~~~~-------~-~~~~~~~~~l~~l~~~e  131 (1247)
                      .++++|.++....        ...+      .........-..|++++......       . .......+..++++.++
T Consensus       134 ~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~e  213 (287)
T d1w5sa2         134 LLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRE  213 (287)
T ss_dssp             EEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHH
T ss_pred             CCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCHHHCCCCEEEEEECCCHHHHHHHHHHCCCHHCCCCEEEECCCCCHHH
T ss_conf             65412578885156655426789889998743201045651477624308999999862520112322065225775999


Q ss_pred             HHHHHHHHHCC-CCCCHHHHHHHHHHHHHC
Q ss_conf             99999998099-999835489999999990
Q 000869          132 AWRLFKLMAGD-DVENRELKSTATEVAKAC  160 (1247)
Q Consensus       132 a~~l~~~~~~~-~~~~~~~~~~~~~i~~~~  160 (1247)
                      ..+++...+.. .....-..++.+.|++..
T Consensus       214 l~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         214 LYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             HHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             999876667775246877999999999997

>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=98.10  E-value=6.2e-05  Score=40.01  Aligned_cols=143  Identities=18%  Similarity=0.235  Sum_probs=82.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|.|||++|+.+++....     .++.++.++..+.              ... .....+.++.+......+++|++|+
T Consensus        53 ppGtGKT~la~~iA~~~~~-----~~~~i~~~~l~~~--------------~~g-~~~~~l~~~f~~A~~~~P~il~iDe  112 (256)
T d1lv7a_          53 PPGTGKTLLAKAIAGEAKV-----PFFTISGSDFVEM--------------FVG-VGASRVRDMFEQAKKAAPCIIFIDE  112 (256)
T ss_dssp             CTTSCHHHHHHHHHHHHTC-----CEEEECSCSSTTS--------------CCC-CCHHHHHHHHHHHHTTCSEEEEETT
T ss_pred             CCCCCCCHHHHHHHHHCCC-----CEEEEEHHHHHHC--------------CHH-HHHHHHHHHHHHHHHCCCEEEEEEC
T ss_conf             9988822899999998299-----8799886994260--------------010-7899999999999975998999977


Q ss_pred             CCCCC------------C----CHHHCCCCC--CCCCCCEEEEECCCHHHHH-HC----CCCCEEECCCCCHHHHHHHHH
Q ss_conf             99942------------4----000016788--8999949999159814554-13----996239838999899999999
Q 000869           81 IWKRV------------D----LETVGIPFG--DDHRGCKLLLTARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        81 v~~~~------------~----~~~l~~~~~--~~~~~~~iliTtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      ++..-            .    +..+...+.  ....+..||.||..+.... ..    +-...+.++..+.++..++++
T Consensus       113 iD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~  192 (256)
T d1lv7a_         113 IDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILK  192 (256)
T ss_dssp             HHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHH
T ss_pred             HHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCEEEECCCCCHHHHHHHHH
T ss_conf             56657567898888748999999999999538777799899980799310798576898787798779959999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHCCCCCH
Q ss_conf             9809999983548999999999089846
Q 000869          138 LMAGDDVENRELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      ..........+  .....+++.+.|..-
T Consensus       193 ~~l~~~~~~~~--~~~~~la~~t~G~s~  218 (256)
T d1lv7a_         193 VHMRRVPLAPD--IDAAIIARGTPGFSG  218 (256)
T ss_dssp             HHHTTSCBCTT--CCHHHHHHTCTTCCH
T ss_pred             HHCCCCCCCCC--CCHHHHHHHCCCCCH
T ss_conf             84259986865--699999986899899

>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=98.08  E-value=9.1e-06  Score=44.58  Aligned_cols=143  Identities=17%  Similarity=0.224  Sum_probs=79.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|.|||++|+.+++....     .++.++.+..      .    ..    ... .....+..+.+......+++|++|+
T Consensus        50 ppGtGKT~la~aia~~~~~-----~~~~i~~~~l------~----~~----~~g-~~~~~l~~~f~~a~~~~p~Ii~iDe  109 (247)
T d1ixza_          50 PPGVGKTHLARAVAGEARV-----PFITASGSDF------V----EM----FVG-VGAARVRDLFETAKRHAPCIVFIDE  109 (247)
T ss_dssp             CTTSSHHHHHHHHHHHTTC-----CEEEEEHHHH------H----HS----CTT-HHHHHHHHHHHHHTTSSSEEEEEET
T ss_pred             CCCCCHHHHHHHHHHHCCC-----CEEEEEHHHH------H----HC----CCC-HHHHHHHHHHHHHHHCCCEEEEEEC
T ss_conf             8988835999999987399-----7799786996------4----62----453-8999999999999976997999977


Q ss_pred             CCCCC----------------CCHHHCCCCC--CCCCCCEEEEECCCHHHHH-HC----CCCCEEECCCCCHHHHHHHHH
Q ss_conf             99942----------------4000016788--8999949999159814554-13----996239838999899999999
Q 000869           81 IWKRV----------------DLETVGIPFG--DDHRGCKLLLTARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        81 v~~~~----------------~~~~l~~~~~--~~~~~~~iliTtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      ++..-                .+..+...+.  ....+..||-||..+.... .+    +-...++++..+.++..++++
T Consensus       110 id~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~  189 (247)
T d1ixza_         110 IDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILR  189 (247)
T ss_dssp             HHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHH
T ss_pred             HHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCEEEEECCCCHHHHHHHHH
T ss_conf             36647467899888758999999999999638777899899980799400699675898785799979969999999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHCCCCCH
Q ss_conf             9809999983548999999999089846
Q 000869          138 LMAGDDVENRELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      ..........+  .....+++.+.|..-
T Consensus       190 ~~l~~~~~~~~--~~~~~la~~t~g~s~  215 (247)
T d1ixza_         190 IHARGKPLAED--VDLALLAKRTPGFVG  215 (247)
T ss_dssp             HHHTTSCBCTT--CCHHHHHHTCTTCCH
T ss_pred             HHHCCCCCCCC--CCHHHHHHHCCCCCH
T ss_conf             87506577654--689999977889889

>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=97.97  E-value=2.3e-05  Score=42.36  Aligned_cols=156  Identities=11%  Similarity=0.017  Sum_probs=81.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|+||||+|+.++++..     ..+++++.+...+...+... ................ . .......+...++++|+
T Consensus        60 PpG~GKTt~a~~la~~~~-----~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~-~~~~~~~~~~~vi~ide  131 (253)
T d1sxja2          60 PPGIGKTTAAHLVAQELG-----YDILEQNASDVRSKTLLNAG-VKNALDNMSVVGYFKH-N-EEAQNLNGKHFVIIMDE  131 (253)
T ss_dssp             STTSSHHHHHHHHHHHTT-----CEEEEECTTSCCCHHHHHHT-GGGGTTBCCSTTTTTC------CCSSTTSEEEEECS
T ss_pred             CCCCCHHHHHHHHHHHHH-----HHHHCCCCCCCHHHHHHHHH-HHHHHHCCHHHHHHHH-H-HHCCCCCCCCEEEEEEE
T ss_conf             999988899999999987-----51201344322116889999-9887631212101334-3-20145566513777630


Q ss_pred             CCCCCC-----CHHHCCCCCCCCCCCEEEEEC-CCHHHH-HHCCCCCEEECCCCCHHHHHHHHHHHH---CCCCCCHHHH
Q ss_conf             999424-----000016788899994999915-981455-413996239838999899999999980---9999983548
Q 000869           81 IWKRVD-----LETVGIPFGDDHRGCKLLLTA-RDRTVL-FSMGSEKNFLVDILKEEEAWRLFKLMA---GDDVENRELK  150 (1247)
Q Consensus        81 v~~~~~-----~~~l~~~~~~~~~~~~iliTt-R~~~~~-~~~~~~~~~~l~~l~~~ea~~l~~~~~---~~~~~~~~~~  150 (1247)
                      ++....     +..+..... ......+++++ ...... ........+++.+.+.++-.+.+...+   +-..+    .
T Consensus       132 ~~~~~~~~~~~~~~~~~~~~-~~~~~ii~i~~~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i~i~----~  206 (253)
T d1sxja2         132 VDGMSGGDRGGVGQLAQFCR-KTSTPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLD----P  206 (253)
T ss_dssp             GGGCCTTSTTHHHHHHHHHH-HCSSCEEEEESCTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTCCCC----T
T ss_pred             CCCCCCCHHHHHHHHHHHHC-CCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCCCCC----H
T ss_conf             11111000134677765401-234222111355552113532440365311453146788999999998099999----9


Q ss_pred             HHHHHHHHHCCCCC-HHHHH
Q ss_conf             99999999908984-69999
Q 000869          151 STATEVAKACKGLP-IALTT  169 (1247)
Q Consensus       151 ~~~~~i~~~~~g~P-lai~~  169 (1247)
                      ++...|++.++|-. -||..
T Consensus       207 ~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         207 NVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             THHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHCCCCHHHHHHH
T ss_conf             99999999679709999999

>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=97.96  E-value=3.3e-05  Score=41.47  Aligned_cols=143  Identities=9%  Similarity=0.156  Sum_probs=80.7

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|.|||++|+.++......     .+.++.+...             +.. . .........+........++++++||
T Consensus        49 p~GtGKT~l~~ala~~~~~~-----~~~~~~~~l~-------------~~~-~-~~~~~~l~~~f~~A~~~~p~il~ide  108 (265)
T d1r7ra3          49 PPGCGKTLLAKAIANECQAN-----FISIKGPELL-------------TMW-F-GESEANVREIFDKARQAAPCVLFFDE  108 (265)
T ss_dssp             CTTSSHHHHHHHHHHHTTCE-----EEEECHHHHH-------------TSC-T-TTHHHHHHHHHHHHHHTCSEEEEESS
T ss_pred             CCCCCCHHHHHHHHHHHCCC-----EEEEEHHHHH-------------HCC-C-CCHHHHHHHHHHHHHHCCCCCEEHHH
T ss_conf             99876304778878771894-----7998879952-------------531-6-51589999999999863984356875


Q ss_pred             CCCCC----------------CCHHHCCCCCC--CCCCCEEEEECCCHHHHH-HC----CCCCEEECCCCCHHHHHHHHH
Q ss_conf             99942----------------40000167888--999949999159814554-13----996239838999899999999
Q 000869           81 IWKRV----------------DLETVGIPFGD--DHRGCKLLLTARDRTVLF-SM----GSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        81 v~~~~----------------~~~~l~~~~~~--~~~~~~iliTtR~~~~~~-~~----~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      ++..-                ....+...+..  ...+-.||.||....-.. ..    +....++++..+.++..++|.
T Consensus       109 id~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~  188 (265)
T d1r7ra3         109 LDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILK  188 (265)
T ss_dssp             GGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHH
T ss_pred             HHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHCCHHHHCCCCCCEEEEECCHHHHHHHHHHH
T ss_conf             46324557876788737999999999999628677799899991799222799780787764799956607888999999


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHCCCCCH
Q ss_conf             9809999983548999999999089846
Q 000869          138 LMAGDDVENRELKSTATEVAKACKGLPI  165 (1247)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  165 (1247)
                      ..........+  ....++++.+.|...
T Consensus       189 ~~l~~~~~~~~--~~l~~la~~t~g~s~  214 (265)
T d1r7ra3         189 ANLRKSPVAKD--VDLEFLAKMTNGFSG  214 (265)
T ss_dssp             HHTTCC----C--CCCHHHHHHHCSSCC
T ss_pred             HHHCCCCCHHH--HHHHHHHHCCCCCCH
T ss_conf             99605771024--368999825899999

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.95  E-value=0.00017  Score=37.51  Aligned_cols=126  Identities=15%  Similarity=0.157  Sum_probs=72.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCC-----CEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHC-CCEE
Q ss_conf             99861999999999996221399-----84999990775499999999999939873122447999999999945-9919
Q 000869            1 MGGIGKTTLVKEVARKARKDKLF-----DRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKR-EEKI   74 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f-----~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~-~~~~   74 (1247)
                      .+|+|||+++..++++.....-.     ..+++++++.-..-.            . ......++...+...+.. ..++
T Consensus        51 ~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~------------~-~~g~~e~r~~~i~~~~~~~~~~~  117 (387)
T d1qvra2          51 EPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGA------------K-YRGEFEERLKAVIQEVVQSQGEV  117 (387)
T ss_dssp             CTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------------------CHHHHHHHHHHHHHTTCSSE
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHHHHHCCC------------C-CCHHHHHHHHHHHHHHCCCCCCE
T ss_conf             9998899999999999980899978869668995576665266------------7-41368999999999850589966


Q ss_pred             EEEEECCCCCC---------CCHHHCCCCCCCCCCCEEEEECCCHHHHH------HCCCCCEEECCCCCHHHHHHHHHHH
Q ss_conf             99994999942---------40000167888999949999159814554------1399623983899989999999998
Q 000869           75 LIILDNIWKRV---------DLETVGIPFGDDHRGCKLLLTARDRTVLF------SMGSEKNFLVDILKEEEAWRLFKLM  139 (1247)
Q Consensus        75 LlvlD~v~~~~---------~~~~l~~~~~~~~~~~~iliTtR~~~~~~------~~~~~~~~~l~~l~~~ea~~l~~~~  139 (1247)
                      +|++|++...-         +...+..|....+. -++|-+|-......      ..+..+.+.+++.+.+++.+++...
T Consensus       118 ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~-~~~I~~tT~~ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~  196 (387)
T d1qvra2         118 ILFIDELHTVVGAGKAEGAVDAGNMLKPALARGE-LRLIGATTLDEYREIEKDPALERRFQPVYVDEPTVEETISILRGL  196 (387)
T ss_dssp             EEEECCC-------------------HHHHHTTC-CCEEEEECHHHHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHH
T ss_pred             EEEECCHHHHHCCCCCCCCCCHHHHHHHHHHCCC-CCEEEECCHHHHHHHCCCHHHHHHCCCCCCCCCCHHHHHHHHHHH
T ss_conf             9872408888427778774138999999973788-516663689999876336799982461127998678899999999


Q ss_pred             H
Q ss_conf             0
Q 000869          140 A  140 (1247)
Q Consensus       140 ~  140 (1247)
                      .
T Consensus       197 ~  197 (387)
T d1qvra2         197 K  197 (387)
T ss_dssp             H
T ss_pred             H
T ss_conf             9

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.88  E-value=1.7e-05  Score=43.05  Aligned_cols=140  Identities=16%  Similarity=0.175  Sum_probs=78.5

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEECC
Q ss_conf             98619999999999962213998499999077549999999999993987312244799999999994599199999499
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDNI   81 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~v   81 (1247)
                      .|+|||.|+++++++....  ...+++++...      ....+...+..        .....+...+  ...-++++||+
T Consensus        45 ~G~GKTHLl~A~~~~~~~~--~~~~~~~~~~~------~~~~~~~~~~~--------~~~~~~~~~~--~~~dll~iDDi  106 (213)
T d1l8qa2          45 VGTGKTHLLQAAGNEAKKR--GYRVIYSSADD------FAQAMVEHLKK--------GTINEFRNMY--KSVDLLLLDDV  106 (213)
T ss_dssp             SSSSHHHHHHHHHHHHHHT--TCCEEEEEHHH------HHHHHHHHHHH--------TCHHHHHHHH--HTCSEEEEECG
T ss_pred             CCCCHHHHHHHHHHHHCCC--CCCEEEECHHH------HHHHHHHHHHC--------CCHHHHHHHH--HHCCCHHHHHH
T ss_conf             9983999999999874467--65048844378------79999999871--------6626678987--62130101126


Q ss_pred             CCCC---CCHH-HCCCCCC-CCCCCEEEEECCCHHHHH---------HCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCH
Q ss_conf             9942---4000-0167888-999949999159814554---------139962398389998999999999809999983
Q 000869           82 WKRV---DLET-VGIPFGD-DHRGCKLLLTARDRTVLF---------SMGSEKNFLVDILKEEEAWRLFKLMAGDDVENR  147 (1247)
Q Consensus        82 ~~~~---~~~~-l~~~~~~-~~~~~~iliTtR~~~~~~---------~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~  147 (1247)
                      +...   .|.. +...+-. ...|.++|+|++...-..         +.....+++++ .++++..+++.+.+.+... .
T Consensus       107 ~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~rgl-~  184 (213)
T d1l8qa2         107 QFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKEFNL-E  184 (213)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHHTTC-C
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHCCCCCHHHHHHHHCCEEEEEC-CCCHHHHHHHHHHHHHCCC-C
T ss_conf             5505865778899999998763166389954875100134326788886185689978-8827999999999998299-9


Q ss_pred             HHHHHHHHHHHHCC
Q ss_conf             54899999999908
Q 000869          148 ELKSTATEVAKACK  161 (1247)
Q Consensus       148 ~~~~~~~~i~~~~~  161 (1247)
                      -..+.+.-|++...
T Consensus       185 l~~~v~~yl~~~~~  198 (213)
T d1l8qa2         185 LRKEVIDYLLENTK  198 (213)
T ss_dssp             CCHHHHHHHHHHCS
T ss_pred             CCHHHHHHHHHHCC
T ss_conf             99999999998568

>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=97.88  E-value=0.0001  Score=38.78  Aligned_cols=138  Identities=17%  Similarity=0.248  Sum_probs=65.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|+|||++|+++++...    + ..+.++..+...            + . ........+..+........++++++|+
T Consensus        48 ppGtGKT~la~alA~~~~----~-~~~~i~~~~~~~------------g-~-~~~~~~~~i~~if~~A~~~~p~il~iDE  108 (246)
T d1d2na_          48 PPHSGKTALAAKIAEESN----F-PFIKICSPDKMI------------G-F-SETAKCQAMKKIFDDAYKSQLSCVVVDD  108 (246)
T ss_dssp             STTSSHHHHHHHHHHHHT----C-SEEEEECGGGCT------------T-C-CHHHHHHHHHHHHHHHHTSSEEEEEECC
T ss_pred             CCCCCHHHHHHHHHHCCC----C-CCCCCCCCCCCC------------C-C-CCCCHHHHHHHHHHHHHHCCCCEEEHHH
T ss_conf             699988999999862010----0-233345652235------------6-5-4211224444456555532422233102


Q ss_pred             CCCCC------------CCHHHCC---CCCCCCCCCEEEEECCCHHHHHHC---C-CCCEEECCCCCH-HHHHHHHHHHH
Q ss_conf             99942------------4000016---788899994999915981455413---9-962398389998-99999999980
Q 000869           81 IWKRV------------DLETVGI---PFGDDHRGCKLLLTARDRTVLFSM---G-SEKNFLVDILKE-EEAWRLFKLMA  140 (1247)
Q Consensus        81 v~~~~------------~~~~l~~---~~~~~~~~~~iliTtR~~~~~~~~---~-~~~~~~l~~l~~-~ea~~l~~~~~  140 (1247)
                      ++...            ....+..   .....+.+..||.||..+......   + ....+.++.++. ++-.+.+....
T Consensus       109 id~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~~~  188 (246)
T d1d2na_         109 IERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLG  188 (246)
T ss_dssp             HHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHCCCHHHCCCCCEEEECCCCHHHHHHHHHHHHCC
T ss_conf             56676513454412478999999986077765450145532488322561020186633885599105999999997426


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC
Q ss_conf             99999835489999999990898
Q 000869          141 GDDVENRELKSTATEVAKACKGL  163 (1247)
Q Consensus       141 ~~~~~~~~~~~~~~~i~~~~~g~  163 (1247)
                      .  ....    ....+++.+.|-
T Consensus       189 ~--~~~~----~~~~i~~~~~g~  205 (246)
T d1d2na_         189 N--FKDK----ERTTIAQQVKGK  205 (246)
T ss_dssp             C--SCHH----HHHHHHHHHTTS
T ss_pred             C--CCHH----HHHHHHHHCCCC
T ss_conf             8--9868----899999974899

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=97.53  E-value=5.3e-05  Score=40.35  Aligned_cols=108  Identities=9%  Similarity=0.029  Sum_probs=0.0

Q ss_pred             CCCCCCEEECCCCCC--CCCCCCCHHHHCCCCCCCEEECCCCCCC-----CCCCCCCCCCCCCEEECCCCCCCCC-----
Q ss_conf             999844999358998--3343465344319998749991599775-----5893532677886998258677896-----
Q 000869          342 ECPQLEFLYMDSNGS--SVEINVPEKFFTGMKKLKVVDFCRMQFF-----SLPPSIDHLLNLQTLCLDQCILGDV-----  409 (1247)
Q Consensus       342 ~~~~L~~L~l~~~~~--~~~~~l~~~~~~~l~~Lr~L~L~~~~~~-----~lp~~i~~l~~L~~L~L~~~~l~~~-----  409 (1247)
                      +.+.|+.|+++++..  ..........+...+.|+.|++++|.+.     .+.+.+...+.|+.|++++|.+..-     
T Consensus        13 n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~~g~~~l   92 (167)
T d1pgva_          13 DDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTPELLARL   92 (167)
T ss_dssp             TCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCHHHHHHH
T ss_pred             CCCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCCCEEEEHHHCCHHHHHHH
T ss_conf             89998197827999989899999999976377645401201562156798875310002343300330102145999999


Q ss_pred             -CCCCCCCCCCEEECCCCCCCC--------CCHHHCCCCCCCEEECCCC
Q ss_conf             -122588878688752788976--------7532138887868834277
Q 000869          410 -AIIGKLKNLEILSFSGSGIVK--------LPEELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       410 -~~~~~L~~L~~L~L~~~~i~~--------lp~~i~~L~~L~~L~L~~~  449 (1247)
                       ..+..-+.|++|+++++.+..        +...+..-++|+.|+++.+
T Consensus        93 ~~aL~~n~sL~~L~l~~n~~~~~g~~~~~~l~~~L~~n~sL~~l~l~~~  141 (167)
T d1pgva_          93 LRSTLVTQSIVEFKADNQRQSVLGNQVEMDMMMAIEENESLLRVGISFA  141 (167)
T ss_dssp             HHHTTTTCCCSEEECCCCSSCCCCHHHHHHHHHHHHHCSSCCEEECCCC
T ss_pred             HHHHHHCCCCCEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCEEECCCC
T ss_conf             9999848938987788776888657999999999972998538648688

>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=97.43  E-value=0.0015  Score=32.40  Aligned_cols=138  Identities=17%  Similarity=0.129  Sum_probs=71.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      .+|+|||++|+.+++...    ++ .+.++.........+.. +....                      +.+..+++|.
T Consensus        43 PpGtGKT~lA~~la~~~~----~~-~~~~~~~~~~~~~~~~~-~~~~~----------------------~~~~~~~ide   94 (238)
T d1in4a2          43 PPGLGKTTLAHIIASELQ----TN-IHVTSGPVLVKQGDMAA-ILTSL----------------------ERGDVLFIDE   94 (238)
T ss_dssp             STTSSHHHHHHHHHHHHT----CC-EEEEETTTCCSHHHHHH-HHHHC----------------------CTTCEEEEET
T ss_pred             CCCCCHHHHHHHHHHCCC----CC-CCCCCCCCCCCHHHHHH-HHHHH----------------------CCCCCHHHHH
T ss_conf             999738899999985038----88-53325744224888999-98754----------------------3588247778


Q ss_pred             CCCCC--------------------CCHHHCCCCCCCCCCCEEEEEC-CCHHHHH--HCCCCCEEECCCCCHHHHHHHHH
Q ss_conf             99942--------------------4000016788899994999915-9814554--13996239838999899999999
Q 000869           81 IWKRV--------------------DLETVGIPFGDDHRGCKLLLTA-RDRTVLF--SMGSEKNFLVDILKEEEAWRLFK  137 (1247)
Q Consensus        81 v~~~~--------------------~~~~l~~~~~~~~~~~~iliTt-R~~~~~~--~~~~~~~~~l~~l~~~ea~~l~~  137 (1247)
                      ++...                    .................+|.+| +......  ..+....+.++..+.++...++.
T Consensus        95 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~  174 (238)
T d1in4a2          95 IHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIK  174 (238)
T ss_dssp             GGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCEEEEEEEEEECCCCHHHHHHHHH
T ss_conf             98840677764214024414544543760024444578876999954787555543113300799844787787777777


Q ss_pred             HHHCCCCCCHHHHHHHHHHHHHCCCCCHHH
Q ss_conf             980999998354899999999908984699
Q 000869          138 LMAGDDVENRELKSTATEVAKACKGLPIAL  167 (1247)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~i~~~~~g~Plai  167 (1247)
                      ..+..... ....+.+..+++..+|-+-.+
T Consensus       175 ~~~~~~~~-~~~~~~l~~i~~~s~gd~R~a  203 (238)
T d1in4a2         175 RAASLMDV-EIEDAAAEMIAKRSRGTPRIA  203 (238)
T ss_dssp             HHHHHTTC-CBCHHHHHHHHHTSTTCHHHH
T ss_pred             HHHHHCCC-HHHHHHHHHHHHHCCCCHHHH
T ss_conf             76530110-025799999999679989999

>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=97.32  E-value=0.00028  Score=36.33  Aligned_cols=122  Identities=14%  Similarity=0.121  Sum_probs=67.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHCC-----CCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH-CCCEE
Q ss_conf             998619999999999962213-----998499999077549999999999993987312244799999999994-59919
Q 000869            1 MGGIGKTTLVKEVARKARKDK-----LFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLK-REEKI   74 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~-----~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~-~~~~~   74 (1247)
                      -+|+|||+++..++++....+     .-..++.++.+.-.             ..........++...+.+.+. ...+.
T Consensus        51 ~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~Li-------------Ag~~~rG~~E~rl~~il~e~~~~~~~i  117 (195)
T d1jbka_          51 EPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALV-------------AGAKYRGEFEERLKGVLNDLAKQEGNV  117 (195)
T ss_dssp             CTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHH-------------TTTCSHHHHHHHHHHHHHHHHHSTTTE
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHHHHH-------------CCCCCCHHHHHHHHHHHHHHHCCCCCE
T ss_conf             5875447999999999980899978818569996699986-------------458740779999999999873179808


Q ss_pred             EEEEECCCCCC---------CCHHHCCCCCCCCCCCEEEEECCCHHHHHH-------CCCCCEEECCCCCHHHHHHHH
Q ss_conf             99994999942---------400001678889999499991598145541-------399623983899989999999
Q 000869           75 LIILDNIWKRV---------DLETVGIPFGDDHRGCKLLLTARDRTVLFS-------MGSEKNFLVDILKEEEAWRLF  136 (1247)
Q Consensus        75 LlvlD~v~~~~---------~~~~l~~~~~~~~~~~~iliTtR~~~~~~~-------~~~~~~~~l~~l~~~ea~~l~  136 (1247)
                      +|++|++...-         +...+..+....+ .-++|.+|-.......       .+....+.+++.+.+++..++
T Consensus       118 ILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg-~l~~IgatT~eey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         118 ILFIDELHTMVGAGKADGAMDAGNMLKPALARG-ELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             EEEEETGGGGTT------CCCCHHHHHHHHHTT-SCCEEEEECHHHHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             EEECCHHHHHHCCCCCCCCCCHHHHHHHHHHCC-CCEEEECCCHHHHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHH
T ss_conf             997260899843787777523899999998579-95498518999999998738899963987545898989999985

>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=97.07  E-value=0.0037  Score=30.17  Aligned_cols=75  Identities=19%  Similarity=0.252  Sum_probs=48.5

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCC-----CCHHHHHHHHHHHHH-CCCEEE
Q ss_conf             98619999999999962213998499999077549999999999993987312-----244799999999994-599199
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE-----ETESSRASRLHEQLK-REEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~l~-~~~~~L   75 (1247)
                      .|.|||++|.+++...+..  -..++|++.....+.+.     +++++.+.+.     .+..+.+-.+.+.+. .+...|
T Consensus        69 ~~~GKT~l~l~~~~~~q~~--g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~~l~~~~~~~l  141 (269)
T d1mo6a1          69 ESSGKTTVALHAVANAQAA--GGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIADMLIRSGALDI  141 (269)
T ss_dssp             SSSSHHHHHHHHHHHHHHT--TCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHHHHHHTTCEEE
T ss_pred             CCCHHHHHHHHHHHHHHCC--CCEEEEEECCCCCCHHH-----HHHHCCCHHHEEEECCCCHHHHHHHHHHHHHCCCCCE
T ss_conf             8748899999999987548--98899998976679999-----9980998899589669989999999999985599878


Q ss_pred             EEEECCCC
Q ss_conf             99949999
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlD~v~~   83 (1247)
                      +|+|.+..
T Consensus       142 iIiDSi~a  149 (269)
T d1mo6a1         142 VVIDSVAA  149 (269)
T ss_dssp             EEEECSTT
T ss_pred             EEEECCCC
T ss_conf             99933024

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=97.01  E-value=0.00033  Score=35.98  Aligned_cols=106  Identities=11%  Similarity=0.077  Sum_probs=0.0

Q ss_pred             CCCCCCEEECCC-CCCCCCCCCCHHHHC---CCCCCCEEECCCCCCC-----CCCCCCCCCCCCCEEECCCCCCCCC---
Q ss_conf             999844999358-998334346534431---9998749991599775-----5893532677886998258677896---
Q 000869          342 ECPQLEFLYMDS-NGSSVEINVPEKFFT---GMKKLKVVDFCRMQFF-----SLPPSIDHLLNLQTLCLDQCILGDV---  409 (1247)
Q Consensus       342 ~~~~L~~L~l~~-~~~~~~~~l~~~~~~---~l~~Lr~L~L~~~~~~-----~lp~~i~~l~~L~~L~L~~~~l~~~---  409 (1247)
                      +.+.|+.|.+.+ +.+....  -..++.   ..++|+.|++++|.+.     .+-+.+.....++.+++++|.+...   
T Consensus        15 ~~~~L~~L~L~~~~~i~~~~--~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~   92 (166)
T d1io0a_          15 NDPDLEEVNLNNIMNIPVPT--LKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGIL   92 (166)
T ss_dssp             TCTTCCEEECTTCTTCCHHH--HHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHH
T ss_pred             CCCCCCEEECCCCCCCCHHH--HHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCHHHHHCCCCCCCHHHH
T ss_conf             59998688768999989899--9999988841982574301589611778999998775212210121025432201478


Q ss_pred             ---CCCCCCCCCCE--EECCCCCCC-----CCCHHHCCCCCCCEEECCCC
Q ss_conf             ---12258887868--875278897-----67532138887868834277
Q 000869          410 ---AIIGKLKNLEI--LSFSGSGIV-----KLPEELGQLTKLRHLDLSNC  449 (1247)
Q Consensus       410 ---~~~~~L~~L~~--L~L~~~~i~-----~lp~~i~~L~~L~~L~L~~~  449 (1247)
                         ..+...+.|+.  |+++++.+.     .+...+.+.++|+.|++..+
T Consensus        93 ~l~~~l~~~~~L~~l~L~l~~n~i~~~~~~~La~~L~~n~~L~~L~l~~~  142 (166)
T d1io0a_          93 ALVEALQSNTSLIELRIDNQSQPLGNNVEMEIANMLEKNTTLLKFGYHFT  142 (166)
T ss_dssp             HHHHGGGGCSSCCEEECCCCSSCCCHHHHHHHHHHHHHCSSCCEEECCCS
T ss_pred             HHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHCCCCCEEECCCC
T ss_conf             89999984865247732167786767999999999984998478858189

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=96.99  E-value=0.0037  Score=30.18  Aligned_cols=75  Identities=23%  Similarity=0.279  Sum_probs=48.6

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCC-----CCHHHHHHHHHHHHH-CCCEEE
Q ss_conf             98619999999999962213998499999077549999999999993987312-----244799999999994-599199
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE-----ETESSRASRLHEQLK-REEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~l~-~~~~~L   75 (1247)
                      +|.|||++|.+++...+..  =..++|++.....+..     ++++++.+.+.     ....+..-.+.+.+. .+..-|
T Consensus        66 ~~sGKT~l~l~~~~~aqk~--g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l~~~~~~~l  138 (268)
T d1xp8a1          66 ESGGKTTLALAIVAQAQKA--GGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMELLVRSGAIDV  138 (268)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHHHTTTCCSE
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCEEEEEECCCCCCHH-----HHHHHCCCCHHEEEECCCCHHHHHHHHHHHHHCCCCCE
T ss_conf             7652279999999999707--9989999887658999-----99982898123799748999999999999986589719


Q ss_pred             EEEECCCC
Q ss_conf             99949999
Q 000869           76 IILDNIWK   83 (1247)
Q Consensus        76 lvlD~v~~   83 (1247)
                      +|+|-+..
T Consensus       139 iIiDSi~a  146 (268)
T d1xp8a1         139 VVVDSVAA  146 (268)
T ss_dssp             EEEECTTT
T ss_pred             EEEECCCC
T ss_conf             99945454

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=96.80  E-value=0.0051  Score=29.41  Aligned_cols=74  Identities=23%  Similarity=0.333  Sum_probs=45.6

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCC-----CCHHHHHHHHHHHHH-CCCEEE
Q ss_conf             98619999999999962213998499999077549999999999993987312-----244799999999994-599199
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQE-----ETESSRASRLHEQLK-REEKIL   75 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~~~l~-~~~~~L   75 (1247)
                      +|+||||+|.+++......  -..++|++.....+..     .++.++.+.+.     ....+..-.+.+.+. .+..-|
T Consensus        63 ~gsGKTtl~l~~~~~~q~~--g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~~~~~~~l  135 (263)
T d1u94a1          63 ESSGKTTLTLQVIAAAQRE--GKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEICDALARSGAVDV  135 (263)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHHHHHTCCSE
T ss_pred             CCCHHHHHHHHHHHHHHCC--CCEEEEECCCCCCCHH-----HHHHHCCCHHHEEEECCCCHHHHHHHHHHHHHCCCCCE
T ss_conf             7747899999999998708--9879998654454899-----99983998799799628989999999999985499989


Q ss_pred             EEEECCC
Q ss_conf             9994999
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlD~v~   82 (1247)
                      +|+|.+.
T Consensus       136 iViDSi~  142 (263)
T d1u94a1         136 IVVDSVA  142 (263)
T ss_dssp             EEEECGG
T ss_pred             EEEECCC
T ss_conf             9998865

>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=96.55  E-value=0.0097  Score=27.84  Aligned_cols=153  Identities=14%  Similarity=0.016  Sum_probs=73.5

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCC----CCCC--HHHHHHHHHHHHHCCCEE
Q ss_conf             9986199999999999622139984999990775499999999999939873----1224--479999999999459919
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVL----QEET--ESSRASRLHEQLKREEKI   74 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~----~~~~--~~~~~~~~~~~l~~~~~~   74 (1247)
                      .+|+|||++|+.++++..     ....+++.............+...+....    ++.+  .......+..... ....
T Consensus        43 PpG~GKTtla~~la~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDe~~~~~~~~~~~l~~~~e-~~~~  116 (239)
T d1ixsb2          43 PPGLGKTTLAHVIAHELG-----VNLRVTSGPAIEKPGDLAAILANSLEEGDILFIDEIHRLSRQAEEHLYPAME-DFVM  116 (239)
T ss_dssp             CTTSCHHHHHHHHHHHHT-----CCEEEEETTTCCSHHHHHHHHHTTCCTTCEEEEETGGGCCHHHHHHHHHHHH-HSEE
T ss_pred             CCCCCHHHHHHHHHHHHC-----CCEEECCCCCCCCCHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHH-HHHH
T ss_conf             799878889999999849-----8747546875343214689988510388734431100110447875001243-3321


Q ss_pred             EEEEECCCCCCCCHHHCCCCCCCCCCCEEEE-ECCCHHHH--HHCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHH
Q ss_conf             9999499994240000167888999949999-15981455--41399623983899989999999998099999835489
Q 000869           75 LIILDNIWKRVDLETVGIPFGDDHRGCKLLL-TARDRTVL--FSMGSEKNFLVDILKEEEAWRLFKLMAGDDVENRELKS  151 (1247)
Q Consensus        75 LlvlD~v~~~~~~~~l~~~~~~~~~~~~ili-TtR~~~~~--~~~~~~~~~~l~~l~~~ea~~l~~~~~~~~~~~~~~~~  151 (1247)
                      -...+.......   .   ... .+...++. |++.....  ........+.+...+.++..+.+...+..... ....+
T Consensus       117 ~~~~~~~~~~~~---~---~~~-~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i-~~~~~  188 (239)
T d1ixsb2         117 DIVIGQGPAART---I---RLE-LPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGV-RITEE  188 (239)
T ss_dssp             EEECSCTTCCCE---E---EEE-CCCCEEEEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCC-CBCHH
T ss_pred             HHHHCCCHHHHH---C---CCC-CCCEEEEEECCCCCCCCCHHHCCCCEEEEEECCCHHHHHHHHHHHHHHHCC-CCCHH
T ss_conf             211046556543---3---468-997799963068333441010122145675205745555788999998487-65267


Q ss_pred             HHHHHHHHCCCCCHHH
Q ss_conf             9999999908984699
Q 000869          152 TATEVAKACKGLPIAL  167 (1247)
Q Consensus       152 ~~~~i~~~~~g~Plai  167 (1247)
                      ....|++.++|.+-..
T Consensus       189 ~l~~ia~~s~gd~R~a  204 (239)
T d1ixsb2         189 AALEIGRRSRGTMRVA  204 (239)
T ss_dssp             HHHHHHHHTTSSHHHH
T ss_pred             HHHHHHHHCCCCHHHH
T ss_conf             8999999769999999

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.51  E-value=0.0065  Score=28.80  Aligned_cols=120  Identities=14%  Similarity=0.076  Sum_probs=62.5

Q ss_pred             CCCCHHHHHHHHHHHHHHCCC-CCEEEEEECCC-CCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEE
Q ss_conf             986199999999999622139-98499999077-5499999999999939873122447999999999945991999994
Q 000869            2 GGIGKTTLVKEVARKARKDKL-FDRVVFSEVSQ-TIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILD   79 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~-f~~~~w~~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD   79 (1247)
                      +|+|||++|..+++....... ..-++++...+ ...+..+- ++...+.....                .+++-++|+|
T Consensus        24 ~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~~~~~I~Id~IR-~i~~~~~~~~~----------------~~~~KviIId   86 (198)
T d2gnoa2          24 DLSYPREVSLELPEYVEKFPPKASDVLEIDPEGENIGIDDIR-TIKDFLNYSPE----------------LYTRKYVIVH   86 (198)
T ss_dssp             SSSHHHHHHHHHHHHHHTSCCCTTTEEEECCSSSCBCHHHHH-HHHHHHTSCCS----------------SSSSEEEEET
T ss_pred             CCCCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHHH-HHHHHHHHCCC----------------CCCCEEEEEE
T ss_conf             998889999999999843456799889980776789989999-99999961754----------------5898799994


Q ss_pred             CCCCC--CCCHHHCCCCCCCCCCCEEEEECCC-HHHHHHC-CCCCEEECCCCCHHHHHHHHHHHH
Q ss_conf             99994--2400001678889999499991598-1455413-996239838999899999999980
Q 000869           80 NIWKR--VDLETVGIPFGDDHRGCKLLLTARD-RTVLFSM-GSEKNFLVDILKEEEAWRLFKLMA  140 (1247)
Q Consensus        80 ~v~~~--~~~~~l~~~~~~~~~~~~iliTtR~-~~~~~~~-~~~~~~~l~~l~~~ea~~l~~~~~  140 (1247)
                      +++..  +...++...+=....++.+|.+|.+ ..+.... .....+.++...  +...+.....
T Consensus        87 ~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~--~~~~~~~~~~  149 (198)
T d2gnoa2          87 DCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPK--EFRDLVKEKI  149 (198)
T ss_dssp             TGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCH--HHHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCHHHCHHHHHCCEEEEECCCCH--HHHHHHHHHH
T ss_conf             73103666664788877378988522220699566878873522777679936--8899999999

>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=96.16  E-value=0.0035  Score=30.28  Aligned_cols=34  Identities=24%  Similarity=0.422  Sum_probs=21.7

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCH
Q ss_conf             986199999999999622139984999990775499
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDI   37 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~   37 (1247)
                      ||+||||+|..++.....+  =..|.-+++....++
T Consensus        17 GGVGKTTvaa~lA~~lA~~--G~rVLlvD~Dp~~~l   50 (296)
T d1ihua1          17 GGVGKTSISCATAIRLAEQ--GKRVLLVSTDPASNV   50 (296)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TCCEEEEECCTTCCH
T ss_pred             CCCHHHHHHHHHHHHHHHC--CCCEEEEECCCCCCH
T ss_conf             8674999999999999978--997899957999887

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.15  E-value=0.016  Score=26.67  Aligned_cols=32  Identities=25%  Similarity=0.369  Sum_probs=25.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf             9986199999999999622139984999990775
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      .+|+|||++|.+++......  ...++|++....
T Consensus        34 ~pGsGKT~l~~qia~~~~~~--~~~~~~is~e~~   65 (242)
T d1tf7a2          34 ATGTGKTLLVSRFVENACAN--KERAILFAYEES   65 (242)
T ss_dssp             CTTSSHHHHHHHHHHHHHTT--TCCEEEEESSSC
T ss_pred             CCCCCHHHHHHHHHHHHHHH--CCCCCEEECCCC
T ss_conf             89999999999999999872--324411212679

>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=95.83  E-value=0.024  Score=25.72  Aligned_cols=52  Identities=21%  Similarity=0.265  Sum_probs=37.3

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC-CHHHHHHHHHHHHCCCCCC
Q ss_conf             99861999999999996221399849999907754-9999999999993987312
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQE   54 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~   54 (1247)
                      ..|+||||.+.+.+.....+  -..+..+++.... ...+-++..++.++.+...
T Consensus        18 p~GvGKTTTiaKLA~~~~~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~   70 (207)
T d1ls1a2          18 LQGSGKTTTAAKLALYYKGK--GRRPLLVAADTQRPAAREQLRLLGEKVGVPVLE   70 (207)
T ss_dssp             CTTTTHHHHHHHHHHHHHHT--TCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEE
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCC
T ss_conf             99998899999999999977--992799954434640888899999862886311

>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=95.81  E-value=0.0039  Score=30.04  Aligned_cols=30  Identities=10%  Similarity=-0.011  Sum_probs=23.5

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf             9986199999999999622139984999990
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEV   31 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~   31 (1247)
                      ++|+||||+|++++..... .+++.+.+++.
T Consensus        14 ~~GsGKTTia~~La~~L~~-~~~~~~~~~~~   43 (183)
T d1m8pa3          14 YMNSGKDAIARALQVTLNQ-QGGRSVSLLLG   43 (183)
T ss_dssp             STTSSHHHHHHHHHHHHHH-HCSSCEEEEEH
T ss_pred             CCCCCHHHHHHHHHHHHHH-CCCCCHHHHHH
T ss_conf             9999999999999999865-07984032116

>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=95.45  E-value=0.008  Score=28.32  Aligned_cols=34  Identities=24%  Similarity=0.321  Sum_probs=24.8

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCH
Q ss_conf             986199999999999622139984999990775499
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDI   37 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~   37 (1247)
                      ||+||||+|..++.....+  -..|.-+++....++
T Consensus        29 GGVGKTT~a~nLA~~lA~~--G~rVllvD~Dp~~~l   62 (279)
T d1ihua2          29 GGVGKTTMAAAIAVRLADM--GFDVHLTTSDPAAHL   62 (279)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TCCEEEEESCCC---
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCCEEEEECCCCCCH
T ss_conf             9887899999999999978--993899937999875

>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=95.25  E-value=0.011  Score=27.48  Aligned_cols=33  Identities=24%  Similarity=0.364  Sum_probs=26.3

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCC
Q ss_conf             98619999999999962213998499999077549
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTID   36 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~   36 (1247)
                      ||+||||+|..++......  -..|.-|++....+
T Consensus        11 GGVGKTT~a~NLA~~LA~~--G~rVLlID~DpQ~~   43 (289)
T d2afhe1          11 GGIGKSTTTQNLVAALAEM--GKKVMIVGCDPKAD   43 (289)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TCCEEEEEECSSSC
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCCEEEEECCCCCC
T ss_conf             9877999999999999978--99789995189997

>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=95.18  E-value=0.0037  Score=30.14  Aligned_cols=74  Identities=22%  Similarity=0.350  Sum_probs=40.4

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHH---HHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEE
Q ss_conf             998619999999999962213998499999077549999999999---99398731224479999999999459919999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIA---EKLGLVLQEETESSRASRLHEQLKREEKILII   77 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~---~~l~~~~~~~~~~~~~~~~~~~l~~~~~~Llv   77 (1247)
                      ..|+|||.+|+.+++..-..  -...+-++.+...+...+.+-+.   ...|..        ....+...+.+....+++
T Consensus        61 p~G~GKt~lak~la~~l~~~--~~~~~~~~~~~~~~~~~~~~L~g~~~gyvG~~--------~~~~l~~~~~~~p~~Vvl  130 (315)
T d1qvra3          61 PTGVGKTELAKTLAATLFDT--EEAMIRIDMTEYMEKHAVSRLIGAPPGYVGYE--------EGGQLTEAVRRRPYSVIL  130 (315)
T ss_dssp             CSSSSHHHHHHHHHHHHHSS--GGGEEEECTTTCCSSGGGGGC----------------------CHHHHHHHCSSEEEE
T ss_pred             CCCCHHHHHHHHHHHHHCCC--CCCEEEEECCCCCCCHHHHHHCCCCCCCCCCC--------CCCHHHHHHHHCCCCEEE
T ss_conf             88624899999999983588--75348873155454215665148999876746--------678489999849983799


Q ss_pred             EECCCCC
Q ss_conf             9499994
Q 000869           78 LDNIWKR   84 (1247)
Q Consensus        78 lD~v~~~   84 (1247)
                      +|+++..
T Consensus       131 ~DEieK~  137 (315)
T d1qvra3         131 FDEIEKA  137 (315)
T ss_dssp             ESSGGGS
T ss_pred             EEHHHHC
T ss_conf             7147540

>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=95.17  E-value=0.011  Score=27.54  Aligned_cols=35  Identities=23%  Similarity=0.356  Sum_probs=27.1

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC-CHH
Q ss_conf             9861999999999996221399849999907754-999
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIK   38 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~   38 (1247)
                      ||+||||+|..++......  -..|..+++.... ++.
T Consensus        11 GGvGKTtia~nlA~~la~~--g~~VlliD~D~~~~~~~   46 (232)
T d1hyqa_          11 GGTGKTTITANLGVALAQL--GHDVTIVDADITMANLE   46 (232)
T ss_dssp             SCSCHHHHHHHHHHHHHHT--TCCEEEEECCCSSSSHH
T ss_pred             CCCHHHHHHHHHHHHHHHC--CCCEEEEECCCCCCCHH
T ss_conf             9980999999999999968--99899995989999878

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=95.03  E-value=0.045  Score=24.15  Aligned_cols=81  Identities=22%  Similarity=0.361  Sum_probs=47.5

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC-CCHHHHHHHHHHHHCCC------C-------CCCCHHHH------H
Q ss_conf             986199999999999622139984999990775-49999999999993987------3-------12244799------9
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLV------L-------QEETESSR------A   61 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~------~-------~~~~~~~~------~   61 (1247)
                      .|+|||+|+..+++.... .+-+.++++-+++. ....++.+.+.+.--..      .       .......+      .
T Consensus        77 ~g~GKt~l~~~i~~~~~~-~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r~~~~~~a  155 (276)
T d2jdid3          77 AGVGKTVLIMELINNVAK-AHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGARARVALTG  155 (276)
T ss_dssp             TTSSHHHHHHHHHHHHTT-TCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHH-HCCCEEEEEEECCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf             998989999999998876-1799699999555759999999998861765456664238999978999999999999999


Q ss_pred             HHHHHHHH--CCCEEEEEEECCCC
Q ss_conf             99999994--59919999949999
Q 000869           62 SRLHEQLK--REEKILIILDNIWK   83 (1247)
Q Consensus        62 ~~~~~~l~--~~~~~LlvlD~v~~   83 (1247)
                      -.+-++++  .++.+|+++||+..
T Consensus       156 ~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         156 LTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             HHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             HHHHHHHHHCCCCEEEEEECCHHH
T ss_conf             999999886379848999706068

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=95.00  E-value=0.014  Score=26.88  Aligned_cols=32  Identities=19%  Similarity=0.282  Sum_probs=25.5

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf             9861999999999996221399849999907754
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI   35 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~   35 (1247)
                      ||+||||+|..++......  -..|.-|++....
T Consensus        10 GGvGKTT~a~nLA~~LA~~--G~rVllID~D~q~   41 (269)
T d1cp2a_          10 GGIGKSTTTQNLTSGLHAM--GKTIMVVGCDPKA   41 (269)
T ss_dssp             TTSSHHHHHHHHHHHHHTT--TCCEEEEEECTTS
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCCEEEEECCCCC
T ss_conf             8577999999999999968--9958999637999

>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=94.85  E-value=0.051  Score=23.88  Aligned_cols=51  Identities=18%  Similarity=0.219  Sum_probs=37.7

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC-CCHHHHHHHHHHHHCCCCC
Q ss_conf             9986199999999999622139984999990775-4999999999999398731
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT-IDIKKIQQAIAEKLGLVLQ   53 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~-~~~~~~~~~i~~~l~~~~~   53 (1247)
                      ..|+||||-+.+++......  =..|..+++... ....+-++..++.++.+..
T Consensus        14 ptGvGKTTTiaKLA~~~~~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~   65 (207)
T d1okkd2          14 VNGVGKTTTIAKLGRYYQNL--GKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVI   65 (207)
T ss_dssp             STTSSHHHHHHHHHHHHHTT--TCCEEEECCCCSSTTHHHHHHHHHHHHTCCEE
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEEECCCCCCCHHHHHHCCCCCCCEEE
T ss_conf             99998899999999999977--99079998136665402667640545682389

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=94.73  E-value=0.019  Score=26.29  Aligned_cols=79  Identities=16%  Similarity=0.225  Sum_probs=39.9

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEE-CCCCCCHHHHHHHHHHHHCCCC----CCCCH------HHHHHHHHHHHHC
Q ss_conf             98619999999999962213998499999-0775499999999999939873----12244------7999999999945
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSE-VSQTIDIKKIQQAIAEKLGLVL----QEETE------SSRASRLHEQLKR   70 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~-~~~~~~~~~~~~~i~~~l~~~~----~~~~~------~~~~~~~~~~l~~   70 (1247)
                      .|+|||+|+...++....+ +-..++++- ++...  ++ ..++........    .....      ....-.+-.+++.
T Consensus        52 ~g~GKT~l~~~i~~~~~~~-~~~~v~~~~~iger~--~e-v~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~iAEyfrd  127 (289)
T d1xpua3          52 PKAGKTMLLQNIAQSIAYN-HPDCVLMVLLIDERP--EE-VTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKAKRLVE  127 (289)
T ss_dssp             SSSSHHHHHHHHHHHHHHH-CTTSEEEEEEEEECH--HH-HHHHHHHCSSEEEEEETTSCHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHC-CCCEEEEEEEECEEH--HH-HHHHHHHCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             9988789999999977515-897699987611008--78-8767754050799605888356789999999999999998


Q ss_pred             -CCEEEEEEECCCCC
Q ss_conf             -99199999499994
Q 000869           71 -EEKILIILDNIWKR   84 (1247)
Q Consensus        71 -~~~~LlvlD~v~~~   84 (1247)
                       ++.+|+++||+-..
T Consensus       128 ~G~dVLli~Dsltr~  142 (289)
T d1xpua3         128 HKKDVIILLDSITRL  142 (289)
T ss_dssp             TTCEEEEEESCHHHH
T ss_pred             HCCCCEEECCCHHHH
T ss_conf             265751551768999

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.65  E-value=0.024  Score=25.66  Aligned_cols=35  Identities=20%  Similarity=0.281  Sum_probs=26.6

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCC-CCCHH
Q ss_conf             98619999999999962213998499999077-54999
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ-TIDIK   38 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~-~~~~~   38 (1247)
                      ||+||||+|..++......  -..|.-+++.. ..++.
T Consensus        12 GGvGKTtia~nLA~~la~~--g~~VlliD~D~~~~~l~   47 (237)
T d1g3qa_          12 GGTGKTTVTANLSVALGDR--GRKVLAVDGDLTMANLS   47 (237)
T ss_dssp             TTSSHHHHHHHHHHHHHHT--TCCEEEEECCTTSCCHH
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCCEEEEECCCCCCCHH
T ss_conf             9881999999999999968--99899994989999746

>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=94.52  E-value=0.0091  Score=28.00  Aligned_cols=18  Identities=28%  Similarity=0.444  Sum_probs=16.0

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|+||||+|+.++....
T Consensus        10 ~~GsGKSTvak~La~~L~   27 (169)
T d1kaga_          10 PMGAGKSTIGRQLAQQLN   27 (169)
T ss_dssp             CTTSCHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999999999999999969

>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=94.46  E-value=0.011  Score=27.59  Aligned_cols=28  Identities=18%  Similarity=0.063  Sum_probs=21.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             998619999999999962213998499999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSE   30 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~   30 (1247)
                      ++|.||||+|++++......  +....++.
T Consensus        27 ~pGSGKTTiAk~La~~l~~~--~~~~~~~~   54 (195)
T d1x6va3          27 LSGAGKTTVSMALEEYLVCH--GIPCYTLD   54 (195)
T ss_dssp             SCHHHHHHHHHHHHHHHHHT--TCCEEEEC
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCCCCHH
T ss_conf             99999999999999999744--79731000

>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=94.44  E-value=0.064  Score=23.31  Aligned_cols=80  Identities=16%  Similarity=0.150  Sum_probs=46.5

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC-CHHHHHHHHHHHHCCCCCCCCH----HHHHHHHHHHHHCCCEEE
Q ss_conf             99861999999999996221399849999907754-9999999999993987312244----799999999994599199
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEETE----SSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~~----~~~~~~~~~~l~~~~~~L   75 (1247)
                      ..|+||||-+.+++......  =..|..+.+.... ...+-++..++.++.+......    .....+..........-+
T Consensus        17 ptGvGKTTTiAKLA~~~~~~--g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~a~~~~~d~   94 (211)
T d2qy9a2          17 VNGVGKTTTIGKLARQFEQQ--GKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQAAKARNIDV   94 (211)
T ss_dssp             CTTSCHHHHHHHHHHHHHTT--TCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHHHHHTTCSE
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCE
T ss_conf             99999899999999999977--9947998232136661204555434338862113568779999999999998769988


Q ss_pred             EEEECCC
Q ss_conf             9994999
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlD~v~   82 (1247)
                      +++|-..
T Consensus        95 ilIDTaG  101 (211)
T d2qy9a2          95 LIADTAG  101 (211)
T ss_dssp             EEECCCC
T ss_pred             EEECCCC
T ss_conf             9965688

>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=94.28  E-value=0.07  Score=23.11  Aligned_cols=52  Identities=19%  Similarity=0.218  Sum_probs=36.9

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC-CHHHHHHHHHHHHCCCCCC
Q ss_conf             99861999999999996221399849999907754-9999999999993987312
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQE   54 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~   54 (1247)
                      ..|+||||-+.+++.+...+  -..|..+.+.... ...+-++..++.++.+...
T Consensus        19 ptGvGKTTTiAKLAa~~~~~--~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~   71 (213)
T d1vmaa2          19 VNGTGKTTSCGKLAKMFVDE--GKSVVLAAADTFRAAAIEQLKIWGERVGATVIS   71 (213)
T ss_dssp             CTTSSHHHHHHHHHHHHHHT--TCCEEEEEECTTCHHHHHHHHHHHHHHTCEEEC
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCC
T ss_conf             99998899999999999977--990699960133420467888776432764103

>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=94.06  E-value=0.078  Score=22.85  Aligned_cols=80  Identities=21%  Similarity=0.174  Sum_probs=46.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC-CHHHHHHHHHHHHCCCCCCCCH----HHHHHHHHHHHHCCCEEE
Q ss_conf             99861999999999996221399849999907754-9999999999993987312244----799999999994599199
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI-DIKKIQQAIAEKLGLVLQEETE----SSRASRLHEQLKREEKIL   75 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~~~~~~----~~~~~~~~~~l~~~~~~L   75 (1247)
                      ..|+||||.+.+++.....+  -..|..+++.... ...+-++..++.++.+......    .....+..........-+
T Consensus        20 ptGvGKTTTiAKLA~~~~~~--g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~~~~~~~~d~   97 (211)
T d1j8yf2          20 VQGTGKATTAGKLAYFYKKK--GFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFLSEKMEI   97 (211)
T ss_dssp             SCCC----HHHHHHHHHHHT--TCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHHHTTCSE
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCHHHHHHHHCCCCCCCEEECCCCHHHHHHHHHHHHHHHCCCCCE
T ss_conf             99999899999999999977--9936999720235515678987401468422302441024478999998740267736


Q ss_pred             EEEECCC
Q ss_conf             9994999
Q 000869           76 IILDNIW   82 (1247)
Q Consensus        76 lvlD~v~   82 (1247)
                      +++|-..
T Consensus        98 IlIDTaG  104 (211)
T d1j8yf2          98 IIVDTAG  104 (211)
T ss_dssp             EEEECCC
T ss_pred             EEEECCC
T ss_conf             9985377

>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=93.93  E-value=0.015  Score=26.86  Aligned_cols=18  Identities=56%  Similarity=0.687  Sum_probs=15.9

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|+||||+|+.++.++.
T Consensus        12 ~pGsGKTTia~~La~~l~   29 (173)
T d1rkba_          12 TPGVGKTTLGKELASKSG   29 (173)
T ss_dssp             STTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999998999999999979

>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=93.92  E-value=0.025  Score=25.53  Aligned_cols=18  Identities=33%  Similarity=0.510  Sum_probs=15.2

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|+||||+|++++....
T Consensus        10 ~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1          10 PAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             STTSSHHHHHHHHHHHSS
T ss_pred             CCCCCHHHHHHHHHHHCC
T ss_conf             999998999999999809

>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=93.88  E-value=0.077  Score=22.86  Aligned_cols=37  Identities=14%  Similarity=0.082  Sum_probs=24.3

Q ss_pred             CCCCHHHHHHHHHHHHHHCC----CCCEEEEEECCCCCCHH
Q ss_conf             98619999999999962213----99849999907754999
Q 000869            2 GGIGKTTLVKEVARKARKDK----LFDRVVFSEVSQTIDIK   38 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~----~f~~~~w~~~~~~~~~~   38 (1247)
                      +|.|||++|.+++.......    .-..++|++........
T Consensus        43 pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~   83 (251)
T d1szpa2          43 FRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPV   83 (251)
T ss_dssp             TTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGG
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHHHH
T ss_conf             99988999999999863124312689639999402307899

>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=93.78  E-value=0.026  Score=25.50  Aligned_cols=74  Identities=15%  Similarity=0.195  Sum_probs=38.9

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCEEEEEEEC
Q ss_conf             99861999999999996221399849999907754999999999999398731224479999999999459919999949
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKLGLVLQEETESSRASRLHEQLKREEKILIILDN   80 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~LlvlD~   80 (1247)
                      ..|+|||.||+.+++-.     +...+-++++...+...+     ..+-...+.-........+...+.......+.+|+
T Consensus        60 p~GvGKT~lak~la~~l-----~~~~i~~d~s~~~~~~~~-----~~l~g~~~gy~g~~~~~~l~~~~~~~~~~vvl~De  129 (315)
T d1r6bx3          60 PTGVGKTEVTVQLSKAL-----GIELLRFDMSEYMERHTV-----SRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDE  129 (315)
T ss_dssp             STTSSHHHHHHHHHHHH-----TCEEEEEEGGGCSSSSCC-----SSSCCCCSCSHHHHHTTHHHHHHHHCSSEEEEEET
T ss_pred             CCCCHHHHHHHHHHHHC-----CCCEEEECCCCCCCHHHH-----HHHCCCCCCCCCCCCCCHHHHHHHHCCCCHHHHCC
T ss_conf             87500699999998633-----677067415444554466-----65214678750114687033777738543022122


Q ss_pred             CCCC
Q ss_conf             9994
Q 000869           81 IWKR   84 (1247)
Q Consensus        81 v~~~   84 (1247)
                      ++..
T Consensus       130 ieKa  133 (315)
T d1r6bx3         130 IEKA  133 (315)
T ss_dssp             GGGS
T ss_pred             CCCC
T ss_conf             2301

>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=93.72  E-value=0.017  Score=26.52  Aligned_cols=18  Identities=28%  Similarity=0.495  Sum_probs=16.4

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      |+|+||||+|+.++....
T Consensus         9 ~~G~GKSTig~~La~~l~   26 (165)
T d2iyva1           9 LPGSGKSTIGRRLAKALG   26 (165)
T ss_dssp             STTSSHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999988999999999849

>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=93.66  E-value=0.018  Score=26.36  Aligned_cols=18  Identities=33%  Similarity=0.545  Sum_probs=16.5

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      |+|+||||+|+.++.+..
T Consensus         8 ~~GsGKsTi~k~La~~l~   25 (161)
T d1viaa_           8 FMGSGKSTLARALAKDLD   25 (161)
T ss_dssp             CTTSCHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999988999999999839

>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=93.57  E-value=0.038  Score=24.53  Aligned_cols=20  Identities=30%  Similarity=0.524  Sum_probs=17.3

Q ss_pred             CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99861999999999996221
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      .+|+||||++++++.....+
T Consensus         9 ~~GtGKTtl~~~i~~~l~~~   28 (189)
T d2i3ba1           9 PPGVGKTTLIHKASEVLKSS   28 (189)
T ss_dssp             CCSSCHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHC
T ss_conf             99971999999999999977

>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=93.44  E-value=0.1  Score=22.25  Aligned_cols=16  Identities=31%  Similarity=0.515  Sum_probs=13.4

Q ss_pred             CCCCCHHHHHHHHHHH
Q ss_conf             9986199999999999
Q 000869            1 MGGIGKTTLVKEVARK   16 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~   16 (1247)
                      ++|.||||+|++.+..
T Consensus        22 ~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          22 FPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             CTTSSHHHHHHHHTGG
T ss_pred             CCCCCHHHHHHHHHHH
T ss_conf             9999899999999976

>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=93.43  E-value=0.018  Score=26.36  Aligned_cols=18  Identities=28%  Similarity=0.278  Sum_probs=15.4

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ..|+||||||+.++....
T Consensus        15 ~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2          15 GESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             CTTSHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999989999999999849

>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=93.42  E-value=0.021  Score=26.01  Aligned_cols=18  Identities=39%  Similarity=0.466  Sum_probs=16.3

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|+||||+|+.++....
T Consensus        10 ~~GsGKSTia~~LA~~Lg   27 (170)
T d1e6ca_          10 ARGCGMTTVGRELARALG   27 (170)
T ss_dssp             CTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999988999999999949

>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=92.98  E-value=0.04  Score=24.45  Aligned_cols=20  Identities=25%  Similarity=0.217  Sum_probs=16.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99861999999999996221
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      ++|+||||+|++.++.....
T Consensus        10 lpgsGKSTla~~L~~~l~~~   29 (213)
T d1bifa1          10 LPARGKTYISKKLTRYLNFI   29 (213)
T ss_dssp             CTTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHC
T ss_conf             99999999999999999746

>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=92.72  E-value=0.045  Score=24.18  Aligned_cols=32  Identities=19%  Similarity=0.173  Sum_probs=22.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf             998619999999999962213998499999077
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ   33 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~   33 (1247)
                      ++|.||||+|++++...... +...+++++...
T Consensus        32 lsGsGKTTia~~L~~~l~~~-~~~~~~~ldgD~   63 (208)
T d1m7ga_          32 LSASGKSTLAVELEHQLVRD-RRVHAYRLDGDN   63 (208)
T ss_dssp             STTSSHHHHHHHHHHHHHHH-HCCCEEEECHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHH-CCCEEEEECCHH
T ss_conf             99999899999999887774-275089975367

>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=92.60  E-value=0.03  Score=25.09  Aligned_cols=17  Identities=35%  Similarity=0.460  Sum_probs=14.1

Q ss_pred             CCCCCHHHHHHHHHHHH
Q ss_conf             99861999999999996
Q 000869            1 MGGIGKTTLVKEVARKA   17 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~   17 (1247)
                      ++|.||||+|++++.+.
T Consensus        10 ~pGsGKTTla~~L~~~~   26 (152)
T d1ly1a_          10 CPGSGKSTWAREFIAKN   26 (152)
T ss_dssp             CTTSSHHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHHC
T ss_conf             99999999999999957

>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=92.56  E-value=0.028  Score=25.30  Aligned_cols=18  Identities=28%  Similarity=0.451  Sum_probs=15.5

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|+||||+|+.++..+.
T Consensus        13 ~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_          13 TPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             STTSSHHHHHHHHHHHST
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             899988999999999858

>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=92.02  E-value=0.06  Score=23.48  Aligned_cols=30  Identities=17%  Similarity=0.192  Sum_probs=21.4

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECC
Q ss_conf             99861999999999996221399849999907
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVS   32 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~   32 (1247)
                      +.|+||||+|+.++..+..+  ...+..+..+
T Consensus         9 ~~GsGKTT~~~~La~~L~~~--~~~~~~~~~~   38 (194)
T d1nksa_           9 IPGVGKSTVLAKVKEILDNQ--GINNKIINYG   38 (194)
T ss_dssp             CTTSCHHHHHHHHHHHHHTT--TCCEEEEEHH
T ss_pred             CCCCCHHHHHHHHHHHHHHC--CCCEEEEECC
T ss_conf             89989899999999999876--9988999789

>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=91.97  E-value=0.065  Score=23.29  Aligned_cols=20  Identities=35%  Similarity=0.434  Sum_probs=17.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99861999999999996221
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      ..|.|||||+++++.....+
T Consensus        10 ~~GSGKTTL~~~L~~~l~~~   29 (170)
T d1np6a_          10 WSGTGKTTLLKKLIPALCAR   29 (170)
T ss_dssp             CTTSCHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHC
T ss_conf             89998999999999999977

>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=91.37  E-value=0.1  Score=22.16  Aligned_cols=40  Identities=13%  Similarity=0.266  Sum_probs=21.1

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHH
Q ss_conf             9861999999999996221399849999907754999999999
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAI   44 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i   44 (1247)
                      .|+|||++|+.+...-...  ....+-+++... +.......+
T Consensus        32 ~GtGK~~~A~~ih~~s~~~--~~~~~~~~~~~~-~~~~~~~~l   71 (247)
T d1ny5a2          32 SGVGKEVVARLIHKLSDRS--KEPFVALNVASI-PRDIFEAEL   71 (247)
T ss_dssp             TTSSHHHHHHHHHHHSTTT--TSCEEEEETTTS-CHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHCCCC--CCCCCCCHHHHH-HHCCCHHHH
T ss_conf             9817999999999965876--533202102343-101128876

>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=91.21  E-value=0.052  Score=23.80  Aligned_cols=18  Identities=28%  Similarity=0.420  Sum_probs=15.8

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      .+|.|||++|+.++....
T Consensus        40 pPGtGKT~la~~la~~~~   57 (273)
T d1gvnb_          40 QPGSGKTSLRSAIFEETQ   57 (273)
T ss_dssp             CTTSCTHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHH
T ss_conf             799889999999999865

>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=91.16  E-value=0.057  Score=23.57  Aligned_cols=28  Identities=25%  Similarity=0.365  Sum_probs=19.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf             99861999999999996221399849999907754
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI   35 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~   35 (1247)
                      ++|.||||+|+.++....       ..|+......
T Consensus        14 ~~GsGKsT~a~~La~~l~-------~~~~~~d~~~   41 (171)
T d1knqa_          14 VSGSGKSAVASEVAHQLH-------AAFLDGDFLH   41 (171)
T ss_dssp             STTSCHHHHHHHHHHHHT-------CEEEEGGGGC
T ss_pred             CCCCCHHHHHHHHHHHHC-------CCEECHHHHH
T ss_conf             999898999999999869-------7831036645

>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=91.16  E-value=0.051  Score=23.85  Aligned_cols=18  Identities=17%  Similarity=0.191  Sum_probs=15.6

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ..|.||||+|+.+++.+.
T Consensus        11 ~~GsGKsTva~~L~~~l~   28 (178)
T d1qhxa_          11 GSSAGKSGIVRCLQSVLP   28 (178)
T ss_dssp             CTTSSHHHHHHHHHHHSS
T ss_pred             CCCCCHHHHHHHHHHHCC
T ss_conf             999998999999999728

>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=90.83  E-value=0.062  Score=23.37  Aligned_cols=29  Identities=24%  Similarity=0.393  Sum_probs=21.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf             9986199999999999622139984999990775
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      .+|+|||.||+.+++...     ...+-++.+..
T Consensus        57 PpG~GKT~lAkalA~~~~-----~~~~~i~~s~~   85 (309)
T d1ofha_          57 PTGVGKTEIARRLAKLAN-----APFIKVEATKF   85 (309)
T ss_dssp             CTTSSHHHHHHHHHHHHT-----CCEEEEEGGGG
T ss_pred             CCCCCHHHHHHHHHHCCC-----CCHHCCCCCCC
T ss_conf             999888899999862132-----21000344330

>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=90.61  E-value=0.099  Score=22.25  Aligned_cols=19  Identities=32%  Similarity=0.366  Sum_probs=17.0

Q ss_pred             CCCCHHHHHHHHHHHHHHC
Q ss_conf             9861999999999996221
Q 000869            2 GGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~   20 (1247)
                      .|.|||||+.+++..++.+
T Consensus        10 ~gSGKTTli~~l~~~L~~~   28 (165)
T d1xjca_          10 KHSGKTTLMEKWVAAAVRE   28 (165)
T ss_dssp             TTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCHHHHHHHHHHHHHHC
T ss_conf             9998999999999999867

>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=90.56  E-value=0.14  Score=21.51  Aligned_cols=29  Identities=24%  Similarity=0.294  Sum_probs=20.6

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf             9986199999999999622139984999990
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEV   31 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~   31 (1247)
                      ..|.||||+|+++.......  ...+..++.
T Consensus        30 ~~GSGKSTla~~L~~~l~~~--~~~~~~~~~   58 (198)
T d1rz3a_          30 LSRSGKTTLANQLSQTLREQ--GISVCVFHM   58 (198)
T ss_dssp             CTTSSHHHHHHHHHHHHHHT--TCCEEEEEG
T ss_pred             CCCCCHHHHHHHHHHHHCCC--CCCCEECCC
T ss_conf             88789999999999983634--665200122

>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=90.43  E-value=0.1  Score=22.13  Aligned_cols=18  Identities=33%  Similarity=0.309  Sum_probs=15.9

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++..+.
T Consensus         8 ~pGsGKsT~a~~La~~~g   25 (181)
T d2cdna1           8 PPGAGKGTQAVKLAEKLG   25 (181)
T ss_dssp             CTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999997999999999989

>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=90.38  E-value=0.14  Score=21.42  Aligned_cols=20  Identities=45%  Similarity=0.662  Sum_probs=16.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99861999999999996221
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      ..|+|||||++.++......
T Consensus         8 ~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           8 EPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             CTTSSHHHHHHHHHHHHGGG
T ss_pred             CCCCHHHHHHHHHHHCCCCC
T ss_conf             99938999999998148888

>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=90.36  E-value=0.12  Score=21.88  Aligned_cols=32  Identities=22%  Similarity=0.201  Sum_probs=21.0

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf             986199999999999622139984999990775
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      +|+|||++|.+++....... -..++|++....
T Consensus        35 ~G~GKT~la~~~~~~~~~~~-~~~~~~~s~e~~   66 (242)
T d1tf7a1          35 SGTGKTLFSIQFLYNGIIEF-DEPGVFVTFEET   66 (242)
T ss_dssp             TTSSHHHHHHHHHHHHHHHH-CCCEEEEESSSC
T ss_pred             CCCCHHHHHHHHHHHHHHHC-CCCCCCCCCCCC
T ss_conf             99999999999999999856-887420126679

>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=90.12  E-value=0.16  Score=21.05  Aligned_cols=20  Identities=30%  Similarity=0.439  Sum_probs=17.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99861999999999996221
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      +.|+||||+++.++..+...
T Consensus         9 ~~GsGKsT~~~~L~~~l~~~   28 (190)
T d1khta_           9 VPGVGSTTSSQLAMDNLRKE   28 (190)
T ss_dssp             CTTSCHHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHHHC
T ss_conf             99989899999999999876

>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=89.72  E-value=0.13  Score=21.53  Aligned_cols=28  Identities=18%  Similarity=0.046  Sum_probs=20.8

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf             986199999999999622139984999990
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEV   31 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~   31 (1247)
                      .|+||||++..++.-...+  -..|..++.
T Consensus        11 ~GVGKTtvs~~La~aLa~~--G~rVl~id~   38 (224)
T d1byia_          11 TEVGKTVASCALLQAAKAA--GYRTAGYKP   38 (224)
T ss_dssp             TTSCHHHHHHHHHHHHHHT--TCCEEEECS
T ss_pred             CCCCHHHHHHHHHHHHHHC--CCEEEEECC
T ss_conf             9942999999999999977--993999886

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=89.70  E-value=0.27  Score=19.85  Aligned_cols=33  Identities=15%  Similarity=0.088  Sum_probs=16.0

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCC
Q ss_conf             986199999999999622139984999990775
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQT   34 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~   34 (1247)
                      .|+||||+|+.+.........-..|.-++..+-
T Consensus        89 sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F  121 (308)
T d1sq5a_          89 VAVGKSTTARVLQALLSRWPEHRRVELITTDGF  121 (308)
T ss_dssp             TTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGG
T ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEEE
T ss_conf             999876899999999730468996599952156

>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=89.52  E-value=0.096  Score=22.33  Aligned_cols=26  Identities=15%  Similarity=0.239  Sum_probs=19.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf             998619999999999962213998499999077
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ   33 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~   33 (1247)
                      ++|.||||+|+.++..+.       ..+++.++
T Consensus        14 ~PGSGKtT~a~~La~~~g-------~~~is~gd   39 (189)
T d2ak3a1          14 APGSGKGTVSSRITKHFE-------LKHLSSGD   39 (189)
T ss_dssp             CTTSSHHHHHHHHHHHBC-------CEEEEHHH
T ss_pred             CCCCCHHHHHHHHHHHHC-------CEEECHHH
T ss_conf             999987999999999979-------86871899

>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=89.34  E-value=0.13  Score=21.54  Aligned_cols=18  Identities=22%  Similarity=0.337  Sum_probs=15.6

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++..+.
T Consensus         8 ~pGSGKsT~a~~La~~~~   25 (182)
T d1zina1           8 LPGAGKGTQAEKIVAAYG   25 (182)
T ss_dssp             STTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999998999999999879

>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=89.16  E-value=0.075  Score=22.92  Aligned_cols=17  Identities=29%  Similarity=0.442  Sum_probs=14.2

Q ss_pred             CCCCCHHHHHHHHHHHH
Q ss_conf             99861999999999996
Q 000869            1 MGGIGKTTLVKEVARKA   17 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~   17 (1247)
                      +.|.||||+|+.++...
T Consensus        12 ~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1          12 HPGSGKSTIAEALANLP   28 (176)
T ss_dssp             CTTSCHHHHHHHHHTCS
T ss_pred             CCCCCHHHHHHHHHHHH
T ss_conf             99998899999999995

>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=89.12  E-value=0.3  Score=19.60  Aligned_cols=20  Identities=35%  Similarity=0.544  Sum_probs=16.8

Q ss_pred             CCCCCHHHHHHHHHHHHHHC
Q ss_conf             99861999999999996221
Q 000869            1 MGGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~   20 (1247)
                      +-|+||||+++.+...+...
T Consensus         8 ~dGsGKST~~~~L~~~l~~~   27 (208)
T d1gsia_           8 VDGAGKRTLVEKLSGAFRAA   27 (208)
T ss_dssp             STTSSHHHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHHHC
T ss_conf             98789999999999999878

>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=89.09  E-value=0.12  Score=21.82  Aligned_cols=18  Identities=28%  Similarity=0.340  Sum_probs=16.0

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      .+|+||||+|+..+..+.
T Consensus        11 p~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_          11 PASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             SSCSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             998798999999999969

>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=88.93  E-value=0.14  Score=21.51  Aligned_cols=18  Identities=39%  Similarity=0.492  Sum_probs=16.4

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.+++++.
T Consensus        11 ppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_          11 PSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             CTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             998898999999999969

>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=88.81  E-value=0.12  Score=21.89  Aligned_cols=18  Identities=28%  Similarity=0.278  Sum_probs=15.5

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++....
T Consensus        14 ~pGSGKsT~a~~La~~~g   31 (194)
T d1qf9a_          14 GPGSGKGTQCANIVRDFG   31 (194)
T ss_dssp             STTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999988999999999979

>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=88.63  E-value=0.33  Score=19.41  Aligned_cols=40  Identities=25%  Similarity=0.287  Sum_probs=27.2

Q ss_pred             CCCCCHHHHHHHHHHHHHHC----CCCCEEEEEECCCCCCHHHH
Q ss_conf             99861999999999996221----39984999990775499999
Q 000869            1 MGGIGKTTLVKEVARKARKD----KLFDRVVFSEVSQTIDIKKI   40 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~----~~f~~~~w~~~~~~~~~~~~   40 (1247)
                      .+|.|||++|.+++......    .....++|+......+...+
T Consensus        44 ~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          44 EFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             STTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHCHHHHCCCCCEEEEEECCCHHHHHHH
T ss_conf             89898899999999986344876388962899831012589999

>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=88.53  E-value=0.12  Score=21.72  Aligned_cols=18  Identities=22%  Similarity=0.176  Sum_probs=15.5

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++....
T Consensus        11 ppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1          11 APASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             STTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999998999999999879

>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=88.39  E-value=0.25  Score=20.07  Aligned_cols=35  Identities=20%  Similarity=0.185  Sum_probs=24.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCC
Q ss_conf             99861999999999996221399849999907754
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTI   35 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~   35 (1247)
                      .+|+|||||..++......+.+=-+|+-++.+...
T Consensus        59 ~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~   93 (323)
T d2qm8a1          59 VPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTR   93 (323)
T ss_dssp             CTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGS
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHH
T ss_conf             99888999999999987636875134434655478

>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=88.13  E-value=0.18  Score=20.82  Aligned_cols=18  Identities=28%  Similarity=0.394  Sum_probs=15.8

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++..+.
T Consensus         8 ~pGSGKsT~a~~La~~~g   25 (182)
T d1s3ga1           8 LPGAGKGTQADRIVEKYG   25 (182)
T ss_dssp             STTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999987999999999879

>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=87.90  E-value=0.12  Score=21.76  Aligned_cols=15  Identities=40%  Similarity=0.589  Sum_probs=7.6

Q ss_pred             CCCHHHHHHHHHHHH
Q ss_conf             861999999999996
Q 000869            3 GIGKTTLVKEVARKA   17 (1247)
Q Consensus         3 GiGKTtla~~~~~~~   17 (1247)
                      |+||||+++.+++..
T Consensus        43 GaGKTtfvr~~~~~l   57 (158)
T d1htwa_          43 GAGKTTLTRGMLQGI   57 (158)
T ss_dssp             TSSHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHC
T ss_conf             765889999987642

>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=87.71  E-value=0.37  Score=19.07  Aligned_cols=17  Identities=24%  Similarity=0.307  Sum_probs=14.9

Q ss_pred             CCCCCHHHHHHHHHHHH
Q ss_conf             99861999999999996
Q 000869            1 MGGIGKTTLVKEVARKA   17 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~   17 (1247)
                      .+|.||||+|+.++..+
T Consensus        16 ppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          16 GPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             STTSSHHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHHH
T ss_conf             99999899999999985

>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=87.26  E-value=0.17  Score=20.98  Aligned_cols=26  Identities=15%  Similarity=0.183  Sum_probs=19.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf             998619999999999962213998499999077
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ   33 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~   33 (1247)
                      ++|.||||+|+.++....       ..+++.++
T Consensus        10 ~pGSGKtT~a~~La~~~g-------~~~i~~~d   35 (180)
T d1akya1          10 PPGAGKGTQAPNLQERFH-------AAHLATGD   35 (180)
T ss_dssp             CTTSSHHHHHHHHHHHHC-------CEEEEHHH
T ss_pred             CCCCCHHHHHHHHHHHHC-------CCEEECCC
T ss_conf             999998999999999969-------94583442

>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=87.09  E-value=0.18  Score=20.89  Aligned_cols=18  Identities=28%  Similarity=0.285  Sum_probs=15.5

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++..+.
T Consensus        11 ~pGSGKsT~a~~La~~~g   28 (190)
T d1ak2a1          11 PPGAGKGTQAPKLAKNFC   28 (190)
T ss_dssp             CTTSSHHHHHHHHHHHHT
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999988999999999869

>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=86.81  E-value=0.19  Score=20.75  Aligned_cols=18  Identities=28%  Similarity=0.259  Sum_probs=15.4

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      .+|.||||+|+.++..+.
T Consensus         9 ppGSGKsT~a~~La~~~g   26 (194)
T d1teva_           9 GPGAGKGTQCARIVEKYG   26 (194)
T ss_dssp             CTTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999998999999999869

>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=86.42  E-value=0.26  Score=19.96  Aligned_cols=18  Identities=22%  Similarity=0.071  Sum_probs=15.4

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      ++|.||||+|+.++..+.
T Consensus         8 ~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           8 APVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             STTSSHHHHHHHHHHHHC
T ss_pred             CCCCCHHHHHHHHHHHHC
T ss_conf             999998999999999869

>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=86.42  E-value=0.44  Score=18.66  Aligned_cols=34  Identities=21%  Similarity=0.335  Sum_probs=21.9

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCC--------CEEEEEECCCC
Q ss_conf             99861999999999996221399--------84999990775
Q 000869            1 MGGIGKTTLVKEVARKARKDKLF--------DRVVFSEVSQT   34 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f--------~~~~w~~~~~~   34 (1247)
                      .+|+|||++|.+++........+        ..++|++....
T Consensus        37 ~~G~GKS~l~l~la~~ia~g~~~~~~~~~~~~~vl~~~~E~~   78 (274)
T d1nlfa_          37 PGGAGKSMLALQLAAQIAGGPDLLEVGELPTGPVIYLPAEDP   78 (274)
T ss_dssp             STTSSHHHHHHHHHHHHHTCCCTTCCCCCCCCCEEEEESSSC
T ss_pred             CCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEECCCH
T ss_conf             899989999999999997699721112357873689851234

>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=86.28  E-value=0.45  Score=18.62  Aligned_cols=29  Identities=14%  Similarity=0.173  Sum_probs=20.5

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEEC
Q ss_conf             9986199999999999622139984999990
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEV   31 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~   31 (1247)
                      +-|+||||+|+.+++....+. + .+.++..
T Consensus        11 ~dGsGKsT~~~~L~~~L~~~g-~-~v~~~~~   39 (209)
T d1nn5a_          11 VDRAGKSTQSRKLVEALCAAG-H-RAELLRF   39 (209)
T ss_dssp             STTSSHHHHHHHHHHHHHHTT-C-CEEEEES
T ss_pred             CCCCCHHHHHHHHHHHHHHCC-C-CEEEEEC
T ss_conf             988899999999999998779-9-6899968

>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=86.08  E-value=0.46  Score=18.56  Aligned_cols=82  Identities=12%  Similarity=0.233  Sum_probs=38.8

Q ss_pred             CCCCHHHHHHHHHHHHHHCC-----CC-CEEEEEECCCCC-CHHHHHHHHHHHHCCCC-------CCCCHHHH------H
Q ss_conf             98619999999999962213-----99-849999907754-99999999999939873-------12244799------9
Q 000869            2 GGIGKTTLVKEVARKARKDK-----LF-DRVVFSEVSQTI-DIKKIQQAIAEKLGLVL-------QEETESSR------A   61 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~-----~f-~~~~w~~~~~~~-~~~~~~~~i~~~l~~~~-------~~~~~~~~------~   61 (1247)
                      +|+|||+++..++.......     .- ..+++.-.+... ...++.+.+...-....       .......+      .
T Consensus        77 ~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~r~~~~~~a  156 (285)
T d2jdia3          77 RQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPLQYLAPYSG  156 (285)
T ss_dssp             TTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             88885899999997577641565445632899963076387899999986145612004999978999999999999999


Q ss_pred             HHHHHHHH-CCCEEEEEEECCCC
Q ss_conf             99999994-59919999949999
Q 000869           62 SRLHEQLK-REEKILIILDNIWK   83 (1247)
Q Consensus        62 ~~~~~~l~-~~~~~LlvlD~v~~   83 (1247)
                      -.+-++++ .++++|+++||+-.
T Consensus       157 ~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         157 CSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             HHHHHHHHHTTCEEEEEEETHHH
T ss_pred             HHHHHHHHHCCCCEEEEECCHHH
T ss_conf             99999999769967999717289

>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=85.38  E-value=0.21  Score=20.45  Aligned_cols=32  Identities=13%  Similarity=0.238  Sum_probs=20.4

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCC---CEEEEEECCC
Q ss_conf             9861999999999996221399---8499999077
Q 000869            2 GGIGKTTLVKEVARKARKDKLF---DRVVFSEVSQ   33 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f---~~~~w~~~~~   33 (1247)
                      .|.||||+|+.+...+......   ..+.-++..+
T Consensus        11 ~gSGKSTla~~L~~~l~~~~~~~~~~~~~vi~~D~   45 (213)
T d1uj2a_          11 TASGKSSVCAKIVQLLGQNEVDYRQKQVVILSQDS   45 (213)
T ss_dssp             TTSSHHHHHHHHHHHTTGGGSCGGGCSEEEEEGGG
T ss_pred             CCCCHHHHHHHHHHHHCHHCCCCCCCCEEEEECCC
T ss_conf             97879999999999964101345788439993465

>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=85.37  E-value=0.25  Score=20.01  Aligned_cols=26  Identities=19%  Similarity=0.189  Sum_probs=19.0

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCC
Q ss_conf             998619999999999962213998499999077
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQ   33 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~   33 (1247)
                      .+|.||||+|+.++..+       +..+++.++
T Consensus        16 ~pGSGKsT~a~~La~~~-------g~~~is~g~   41 (194)
T d3adka_          16 GPGSGKGTQCEKIVQKY-------GYTHLSTGD   41 (194)
T ss_dssp             CTTSSHHHHHHHHHHHT-------CCEEEEHHH
T ss_pred             CCCCCHHHHHHHHHHHH-------CCEEEECCH
T ss_conf             99998799999999986-------984683347

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=85.36  E-value=0.19  Score=20.71  Aligned_cols=19  Identities=26%  Similarity=0.349  Sum_probs=15.7

Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q ss_conf             9986199999999999622
Q 000869            1 MGGIGKTTLVKEVARKARK   19 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~   19 (1247)
                      +-|+||||+++.++..+..
T Consensus        10 ~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1          10 NIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             CTTSSHHHHHHHHHHHCTT
T ss_pred             CCCCCHHHHHHHHHHHHHH
T ss_conf             9888599999999998730

>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=85.16  E-value=0.23  Score=20.29  Aligned_cols=28  Identities=32%  Similarity=0.377  Sum_probs=19.3

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             998619999999999962213998499999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSE   30 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~   30 (1247)
                      ..|+|||||+++++.+....  |..++-.+
T Consensus         9 psG~GK~tl~~~L~~~~~~~--~~~~~~~T   36 (186)
T d1gkya_           9 PSGTGKSTLLKKLFAEYPDS--FGFSVSST   36 (186)
T ss_dssp             CTTSSHHHHHHHHHHHCTTT--EEECCEEE
T ss_pred             CCCCCHHHHHHHHHHHCCCC--EEEEEEEC
T ss_conf             99999899999999748866--24777642

>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=84.74  E-value=0.43  Score=18.73  Aligned_cols=42  Identities=19%  Similarity=0.182  Sum_probs=25.1

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHH
Q ss_conf             998619999999999962213998499999077549999999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQ   42 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~   42 (1247)
                      .+|+|||||..+++.....+.+=-+++-++-+...+--.++-
T Consensus        62 ~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailg  103 (327)
T d2p67a1          62 TPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILG  103 (327)
T ss_dssp             CTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC----------
T ss_pred             CCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECCCCCC
T ss_conf             999989999999999997569833220377761000651554

>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=84.71  E-value=0.25  Score=20.04  Aligned_cols=19  Identities=37%  Similarity=0.373  Sum_probs=15.8

Q ss_pred             CCCCHHHHHHHHHHHHHHC
Q ss_conf             9861999999999996221
Q 000869            2 GGIGKTTLVKEVARKARKD   20 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~   20 (1247)
                      =|+||||+++.+++....+
T Consensus        15 iGsGKSTl~~~L~~~l~~~   33 (333)
T d1p6xa_          15 YGIGKSTTGRVMASAASGG   33 (333)
T ss_dssp             TTSSHHHHHHHHHSGGGCS
T ss_pred             CCCCHHHHHHHHHHHHCCC
T ss_conf             6678999999999986569

>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=84.38  E-value=0.56  Score=18.10  Aligned_cols=19  Identities=26%  Similarity=0.314  Sum_probs=15.9

Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q ss_conf             9986199999999999622
Q 000869            1 MGGIGKTTLVKEVARKARK   19 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~   19 (1247)
                      +-|+||||+++.++..++.
T Consensus        11 ~DGsGKST~~~~L~~~L~~   29 (214)
T d1tmka_          11 LDRTGKTTQCNILYKKLQP   29 (214)
T ss_dssp             STTSSHHHHHHHHHHHTTT
T ss_pred             CCCCCHHHHHHHHHHHHHH
T ss_conf             9888699999999999971

>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=83.78  E-value=0.6  Score=17.95  Aligned_cols=44  Identities=18%  Similarity=0.227  Sum_probs=25.9

Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHH
Q ss_conf             998619999999999962213998499999077549999999999
Q 000869            1 MGGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIA   45 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~   45 (1247)
                      +-|+||||+++.+...+... .+..+.+..-.........+++..
T Consensus        10 ~dGsGKsT~~~~L~~~L~~~-g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_          10 LEGAGKTTARNVVVETLEQL-GIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CTTSCHHHHHHHHHHHHHHT-TCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHC-CCCEEEEECCCCCCCCHHHHHHHH
T ss_conf             98887999999999999967-997399832989961144558988

>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=83.74  E-value=0.6  Score=17.94  Aligned_cols=46  Identities=17%  Similarity=0.216  Sum_probs=26.2

Q ss_pred             CCCCHHHHHHHHHHHHHHCC--------------CCCEEEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98619999999999962213--------------998499999077549999999999993
Q 000869            2 GGIGKTTLVKEVARKARKDK--------------LFDRVVFSEVSQTIDIKKIQQAIAEKL   48 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~--------------~f~~~~w~~~~~~~~~~~~~~~i~~~l   48 (1247)
                      +|+|||++|.+++.......              ....+.|++........ ....+...+
T Consensus        43 ~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~-~~~~~~~~~  102 (258)
T d2i1qa2          43 FGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE-RIMQMAEHA  102 (258)
T ss_dssp             TTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH-HHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHCCCEEEEEEECCCCCHH-HHHHHHHHC
T ss_conf             999989999999999985379743775300310038519999956876889-999888522

>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=83.37  E-value=0.34  Score=19.33  Aligned_cols=19  Identities=32%  Similarity=0.511  Sum_probs=16.1

Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q ss_conf             9986199999999999622
Q 000869            1 MGGIGKTTLVKEVARKARK   19 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~   19 (1247)
                      ..|+|||||+++++..+..
T Consensus         8 PsGsGK~tl~~~L~~~~~~   26 (190)
T d1lvga_           8 PSGAGKSTLLKKLFQEHSS   26 (190)
T ss_dssp             CTTSSHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHCCC
T ss_conf             9999999999999974887

>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=82.48  E-value=0.22  Score=20.39  Aligned_cols=18  Identities=39%  Similarity=0.375  Sum_probs=15.3

Q ss_pred             CCCCHHHHHHHHHHHHHH
Q ss_conf             986199999999999622
Q 000869            2 GGIGKTTLVKEVARKARK   19 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~   19 (1247)
                      =|+||||+++.+.+....
T Consensus        14 iGsGKSTl~~~L~~~l~~   31 (331)
T d1osna_          14 YGIGKTTAAEEFLHHFAI   31 (331)
T ss_dssp             SSSCTTHHHHHHHHTTTT
T ss_pred             CCCCHHHHHHHHHHHHHH
T ss_conf             778899999999998734

>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=81.16  E-value=0.13  Score=21.54  Aligned_cols=15  Identities=33%  Similarity=0.419  Sum_probs=8.9

Q ss_pred             CCCCHHHHHHHHHHH
Q ss_conf             986199999999999
Q 000869            2 GGIGKTTLVKEVARK   16 (1247)
Q Consensus         2 gGiGKTtla~~~~~~   16 (1247)
                      -|+||||+|+.+.+.
T Consensus        18 ~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1          18 IGSGKTTYLNHFEKY   32 (197)
T ss_dssp             TTSCHHHHHHTTGGG
T ss_pred             CCCCHHHHHHHHHHH
T ss_conf             998889999999987

>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=81.11  E-value=0.4  Score=18.91  Aligned_cols=15  Identities=33%  Similarity=0.590  Sum_probs=9.1

Q ss_pred             CCCCHHHHHHHHHHH
Q ss_conf             986199999999999
Q 000869            2 GGIGKTTLVKEVARK   16 (1247)
Q Consensus         2 gGiGKTtla~~~~~~   16 (1247)
                      .|+|||.+|+.++.-
T Consensus        77 TGvGKTElAk~LA~~   91 (364)
T d1um8a_          77 TGSGKTLMAQTLAKH   91 (364)
T ss_dssp             TTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHH
T ss_conf             986378999999864

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=80.83  E-value=0.33  Score=19.38  Aligned_cols=17  Identities=29%  Similarity=0.382  Sum_probs=14.1

Q ss_pred             CCCCHHHHHHHHHHHHH
Q ss_conf             98619999999999962
Q 000869            2 GGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~   18 (1247)
                      =|+||||+++.+++...
T Consensus        13 iGsGKTTl~~~La~~l~   29 (329)
T d1e2ka_          13 HGMGKTTTTQLLVALGS   29 (329)
T ss_dssp             TTSSHHHHHHHHTC---
T ss_pred             CCCCHHHHHHHHHHHHC
T ss_conf             67789999999999817

>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=80.75  E-value=0.78  Score=17.30  Aligned_cols=77  Identities=13%  Similarity=0.235  Sum_probs=38.3

Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHH-CCCCCCCCH-------HHHHHHHHHHHHCCCE
Q ss_conf             98619999999999962213998499999077549999999999993-987312244-------7999999999945991
Q 000869            2 GGIGKTTLVKEVARKARKDKLFDRVVFSEVSQTIDIKKIQQAIAEKL-GLVLQEETE-------SSRASRLHEQLKREEK   73 (1247)
Q Consensus         2 gGiGKTtla~~~~~~~~~~~~f~~~~w~~~~~~~~~~~~~~~i~~~l-~~~~~~~~~-------~~~~~~~~~~l~~~~~   73 (1247)
                      +|+|||++|.+++....... =..|.+++...  +...+...+.... +........       ..........+. +..
T Consensus        44 ~G~GKT~~~~~la~~~a~~~-g~~v~~~s~E~--~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~  119 (277)
T d1cr2a_          44 SGMGKSTFVRQQALQWGTAM-GKKVGLAMLEE--SVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFDQWFDELF-GND  119 (277)
T ss_dssp             TTSSHHHHHHHHHHHHHHTS-CCCEEEEESSS--CHHHHHHHHHHHHTTCCGGGCHHHHHHHHHTSHHHHHHHHHH-SSS
T ss_pred             CCCCHHHHHHHHHHHHHHHC-CCCEEEEEECC--CHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHHHHHHHHHHHH-CCC
T ss_conf             99979999999997265533-66345764011--113577699998645871010122222145677888988740-352


Q ss_pred             EEEEEECCC
Q ss_conf             999994999
Q 000869           74 ILIILDNIW   82 (1247)
Q Consensus        74 ~LlvlD~v~   82 (1247)
                      .+.++|...
T Consensus       120 ~~~~~~~~~  128 (277)
T d1cr2a_         120 TFHLYDSFA  128 (277)
T ss_dssp             CEEEECCC-
T ss_pred             EEEEECCCC
T ss_conf             146621433

>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=80.59  E-value=0.46  Score=18.59  Aligned_cols=18  Identities=33%  Similarity=0.455  Sum_probs=14.3

Q ss_pred             CCCCCHHHHHHHHHHHHH
Q ss_conf             998619999999999962
Q 000869            1 MGGIGKTTLVKEVARKAR   18 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~   18 (1247)
                      -+|+|||+|..++..+..
T Consensus        10 ~~~vGKTsl~~r~~~~~~   27 (195)
T d1svsa1          10 AGESGKSTIVKQMKIIHE   27 (195)
T ss_dssp             STTSSHHHHHHHHHHHHS
T ss_pred             CCCCCHHHHHHHHHHCCC
T ss_conf             999888999998840897

>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=80.57  E-value=0.51  Score=18.32  Aligned_cols=19  Identities=42%  Similarity=0.508  Sum_probs=15.7

Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q ss_conf             9986199999999999622
Q 000869            1 MGGIGKTTLVKEVARKARK   19 (1247)
Q Consensus         1 ~gGiGKTtla~~~~~~~~~   19 (1247)
                      ..|.|||||..++.+....
T Consensus         8 ~~GsGKTTLl~~ll~~~~~   26 (244)
T d1yrba1           8 TAGSGKTTLTGEFGRYLED   26 (244)
T ss_dssp             STTSSHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHHHHH
T ss_conf             8998399999999998843